Browse dbCAN-PUL Entries

PULID Characterization Method(s) Substrate Organism Publication Publish Date Type Num Genes Num CAZymes CazyFamily
PUL0001 RNA-Seq, substrate binding assay, enzyme activity assay, mass spectrometry beta-mannan Roseburia intestinalis 30796211
The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. Nat Commun. 2019 Feb 22;10(1):905. doi: 10.1038/s41467-019-08812-y.
2019 Feb 22 degradation 15 7 GH1, CE2, GH130, GH130, GH36, GH113
PUL0002 enzyme activity assay, Northern Blot lichenan Bacillus subtilis 8606172
LicT, a Bacillus subtilis transcriptional antiterminator protein of the BglG family. J Bacteriol. 1996 Apr;178(7):1971-9. doi: 10.1128/jb.178.7.1971-1979.1996.
1996 Apr degradation 2 1 GH16
PUL0003 RT-PCR xylan Bacillus subtilis 26559526
Metabolic potential of Bacillus subtilis 168 for the direct conversion of xylans to fermentation products. Appl Microbiol Biotechnol. 2016 Feb;100(3):1501-1510. doi: 10.1007/s00253-015-7124-x. Epub 2015 Nov 12.
2016 Feb degradation 2 2 GH30, GH30_8, GH43_16, CBM6
PUL0004 enzyme activity assay, substrate binding assay glucose, cellobiose, maltose uncultured bacterium 26827771
A novel metagenome-derived gene cluster from termite hindgut: Encoding phosphotransferase system components and high glucose tolerant glucosidase. Enzyme Microb Technol. 2016 Mar;84:24-31. doi: 10.1016/j.enzmictec.2015.12.005. Epub 2015 Dec 15.
2016 Mar degradation 2 1 GH1
PUL0005 enzyme activity assay, crystallization beta-glucan, sophorose, laminaribiose Listeria innocua 26886583
Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua. PLoS One. 2016 Feb 17;11(2):e0148870. doi: 10.1371/journal.pone.0148870. eCollection 2016.
2016 degradation 2 1 GH94, GH3
PUL0006 enzyme activity assay galactan Geobacillus stearothermophilus 24637762
Purification, crystallization and preliminary crystallographic analysis of Gan1D, a GH1 6-phospho-beta-galactosidase from Geobacillus stearothermophilus T1. Acta Crystallogr F Struct Biol Commun. 2014 Feb;70(Pt 2):225-31. doi: 10.1107/S2053230X13034778. Epub 2014 Jan 21.
2014 Feb degradation 11 2 GH1
PUL0007 sequence homology analysis galactan Leuconostoc gelidum 27274361
Complete genome sequence of Leuconostoc gelidum subsp. gasicomitatum KG16-1, isolated from vacuum-packaged vegetable sausages. Stand Genomic Sci. 2016 Jun 7;11:40. doi: 10.1186/s40793-016-0164-8. eCollection 2016.
2016 degradation 8 2 GH53, GH42
PUL0008 enzyme activity assay fructan Bacteroides thetaiotaomicron 28103254
A Highly Active Endo-Levanase BT1760 of a Dominant Mammalian Gut Commensal Bacteroides thetaiotaomicron Cleaves Not Only Various Bacterial Levans, but Also Levan of Timothy Grass. PLoS One. 2017 Jan 19;12(1):e0169989. doi: 10.1371/journal.pone.0169989. eCollection 2017.
2017 degradation 12 2 GH32, GH32, GH32
PUL0009 enzyme activity assay, immunoblotting, ATPase assay glycosaminoglycan Streptobacillus moniliformis 28432302
A bacterial ABC transporter enables import of mammalian host glycosaminoglycans. Sci Rep. 2017 Apr 21;7(1):1069. doi: 10.1038/s41598-017-00917-y.
2017 Apr 21 degradation 15 4 PL8, PL8, GH88
PUL0010 enzyme activity assay, liquid chromatography and mass spectrometry xylan Geobacillus thermodenitrificans 28616644
Synergistic hydrolysis of xylan using novel xylanases, beta-xylosidases, and an alpha-L-arabinofuranosidase from Geobacillus thermodenitrificans NG80-2. Appl Microbiol Biotechnol. 2017 Aug;101(15):6023-6037. doi: 10.1007/s00253-017-8341-2. Epub 2017 Jun 14.
2017 Aug degradation 42 9 GH43, GH43_11, GH10, GH39, GH67, GH10, CBM22, GH52, CE4, GH51
PUL0011 enzyme activity assay cellulose Ruminiclostridium cellulolyticum 8936327
Molecular study and overexpression of the Clostridium cellulolyticum celF cellulase gene in Escherichia coli. Microbiology (Reading). 1996 Apr;142 ( Pt 4):1013-1023. doi: 10.1099/00221287-142-4-1013.
1996 Apr degradation 4 4 GH48, GH8, CBM3, GH9, CBM4, GH9
PUL0012 enzyme activity assay chitin Vibrio cholerae 28683122
The nucleoid occlusion protein SlmA is a direct transcriptional activator of chitobiose utilization in Vibrio cholerae. PLoS Genet. 2017 Jul 6;13(7):e1006877. doi: 10.1371/journal.pgen.1006877. eCollection 2017 Jul.
2017 Jul degradation 11 2 GH94, GH20, GH9
PUL0013 Northern Blot, RT-PCR, isothermal titration calorimetry, electrophoretic mobility shift assay arabinan Geobacillus stearothermophilus 21460081
The L-Arabinan utilization system of Geobacillus stearothermophilus. J Bacteriol. 2011 Jun;193(11):2838-50. doi: 10.1128/JB.00222-11. Epub 2011 Apr 1.
2011 Jun degradation 56 11 GH43_5, GH43, GH43, GH43_4, GH51, GH51, GH127, CE4, GH52, GH10, GH67, GH39, GH43_11
PUL0014 sequence homology analysis, growth assay pectin Geobacillus thermodenitrificans 28900693
Complete Genome Sequence of Geobacillus thermodenitrificans T12, A Potential Host for Biotechnological Applications. Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12.
2018 Jan degradation 9 2 PL1_6, PL1, GH105
PUL0015 microarray cellobiose Lactococcus lactis 28970222
Disruption of a Transcriptional Repressor by an Insertion Sequence Element Integration Leads to Activation of a Novel Silent Cellobiose Transporter in Lactococcus lactis MG1363. Appl Environ Microbiol. 2017 Nov 16;83(23). pii: AEM.01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1.
2017 Dec 1 degradation 4 1 GH9
PUL0016 microarray cellobiose Lactococcus lactis 28970222
Disruption of a Transcriptional Repressor by an Insertion Sequence Element Integration Leads to Activation of a Novel Silent Cellobiose Transporter in Lactococcus lactis MG1363. Appl Environ Microbiol. 2017 Nov 16;83(23). pii: AEM.01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1.
2017 Dec 1 degradation 5 1 GH1
PUL0017 qRT-PCR, Western Blot, isothermal titration calorimetry cellobiose Ruminiclostridium cellulolyticum 29093754
A seven-gene cluster in Ruminiclostridium cellulolyticum is essential for signalization, uptake and catabolism of the degradation products of cellulose hydrolysis. Biotechnol Biofuels. 2017 Oct 30;10:250. doi: 10.1186/s13068-017-0933-7. eCollection 2017.
2017 degradation 9 1 GH94
PUL0018 rapid plate method growth assay, gene deletion mutant and growth assay, RT-PCR, enzyme activity assay glycosaminoglycan Streptococcus pneumoniae 22311922
Streptococcus pneumoniae can utilize multiple sources of hyaluronic acid for growth. Infect Immun. 2012 Apr;80(4):1390-8. doi: 10.1128/IAI.05756-11. Epub 2012 Feb 6.
2012 Apr degradation 12 3 CBM70, PL8_1, PL8, GH88, PL12_1
PUL0019 enzyme activity assay, Northern Blot lichenan, cellobiose, beta-glucoside Bacillus subtilis 8990303
Identification and characterization of a new beta-glucoside utilization system in Bacillus subtilis. J Bacteriol. 1997 Jan;179(2):496-506. doi: 10.1128/jb.179.2.496-506.1997.
1997 Jan degradation 6 1 GH4
PUL0020 rapid plate method growth assay, adhesion assay glycosaminoglycan Lactobacillus rhamnosus 30006634
Probiotics in human gut microbiota can degrade host glycosaminoglycans. Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w.
2018 Jul 13 degradation 16 3 PL12_1, PL12, GH88, PL8
PUL0021 rapid plate method growth assay, adhesion assay glycosaminoglycan Lactobacillus casei 30006634
Probiotics in human gut microbiota can degrade host glycosaminoglycans. Sci Rep. 2018 Jul 13;8(1):10674. doi: 10.1038/s41598-018-28886-w.
2018 Jul 13 degradation 16 2 PL12, PL12_1, GH88
PUL0022 RT-PCR, gene deletion mutant and growth assay, enzyme activity assay cellobiose Bacillus coagulans 30519284
Simultaneous consumption of cellobiose and xylose by Bacillus coagulans to circumvent glucose repression and identification of its cellobiose-assimilating operons. Biotechnol Biofuels. 2018 Dec 1;11:320. doi: 10.1186/s13068-018-1323-5. eCollection 2018.
2018 degradation 6 1 GH1
PUL0023 RT-PCR, gene deletion mutant and growth assay, enzyme activity assay cellobiose Bacillus coagulans 30519284
Simultaneous consumption of cellobiose and xylose by Bacillus coagulans to circumvent glucose repression and identification of its cellobiose-assimilating operons. Biotechnol Biofuels. 2018 Dec 1;11:320. doi: 10.1186/s13068-018-1323-5. eCollection 2018.
2018 degradation 5 1 GH1
PUL0024 enzyme activity assay, qPCR, carbohydrate binding assay kestose uncultured bacterium 31915220
Harvesting of Prebiotic Fructooligosaccharides by Nonbeneficial Human Gut Bacteria. mSphere. 2020 Jan 8;5(1). pii: 5/1/e00771-19. doi: 10.1128/mSphere.00771-19.
2020 Jan 8 degradation 12 1 GH32
PUL0025 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 32093600
Elucidation of the K32 Capsular Polysaccharide Structure and Characterization of the KL32 Gene Cluster of Acinetobacter baumannii LUH5549. Biochemistry (Mosc). 2020 Feb;85(2):241-247. doi: 10.1134/S000629792002011X.
2020 Feb biosynthesis 18 4 GT2, GT4, GT0, GT2
PUL0026 qPCR, Western Blot, RNA-Seq, enzyme activity assay ribose Bacteroides thetaiotaomicron 31901520
A Ribose-Scavenging System Confers Colonization Fitness on the Human Gut Symbiont Bacteroides thetaiotaomicron in a Diet-Specific Manner. Cell Host Microbe. 2020 Jan 8;27(1):79-92.e9. doi: 10.1016/j.chom.2019.11.009. Epub 2019 Dec 31.
2020 Jan 8 degradation 8 1 GH0, GH35
PUL0027 Northern Blot, gene deletion mutant and growth assay alginate Azotobacter vinelandii 10352233
Transcriptional organization of the Azotobacter vinelandii algGXLVIFA genes: characterization of algF mutants. Gene. 1999 May 31;232(2):217-22. doi: 10.1016/s0378-1119(99)00119-5.
1999 May 31 biosynthesis 5 1 PL5, PL5_1
PUL0028 microarray, qPCR, enzyme activity assay mucin [Ruminococcus] gnavus 24204617
Utilisation of mucin glycans by the human gut symbiont Ruminococcus gnavus is strain-dependent. PLoS One. 2013 Oct 25;8(10):e76341. doi: 10.1371/journal.pone.0076341. eCollection 2013.
2013 degradation 14 3 GH0, GH33, CBM40, GH1, GH140
PUL0029 enzyme activity assay arabinogalactan Bifidobacterium longum 30564851
Degradative enzymes for type II arabinogalactan side chains in Bifidobacterium longum subsp. longum. Appl Microbiol Biotechnol. 2019 Feb;103(3):1299-1310. doi: 10.1007/s00253-018-9566-4. Epub 2018 Dec 18.
2019 Feb degradation 24 8 GH43_24, GH43, CBM13, GH30, GH30_5, GH146, GH43_22, GH43, GH43_34, GH43_22, GH43, GH43_26, GH43_27, GH43, GH43_22, GH43_22
PUL0030 isothermal calorimetric titration, gene deletion mutant and growth assay, enzyme activity assay mannan Bacillus sp. N16-5 26978267, 30351049
A Novel Manno-Oligosaccharide Binding Protein Identified in Alkaliphilic Bacillus sp. N16-5 Is Involved in Mannan Utilization. Galactomannan Degrading Enzymes from the Mannan Utilization Gene Cluster of Alkaliphilic Bacillus sp. N16-5 and Their Synergy on Galactomannan Degradation. PLoS One. 2016 Mar 15;11(3):e0150059. doi: 10.1371/journal.pone.0150059. eCollection 2016. J Agric Food Chem. 2018 Oct 24;66(42):11055-11063. doi: 10.1021/acs.jafc.8b03878. Epub 2018 Oct 15.
2016,2018 Oct 24 degradation 12 7 GH130, GH130, GH27, CE7
PUL0031 RNA-Seq sucrose Bifidobacterium longum 16523284
A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization. Appl Microbiol Biotechnol. 2006 Oct;72(5):975-81. doi: 10.1007/s00253-006-0358-x. Epub 2006 Mar 8.
2006 Oct degradation 3 1 GH32
PUL0032 RNA-Seq sucrose Bifidobacterium longum 16523284
A functional analysis of the Bifidobacterium longum cscA and scrP genes in sucrose utilization. Appl Microbiol Biotechnol. 2006 Oct;72(5):975-81. doi: 10.1007/s00253-006-0358-x. Epub 2006 Mar 8.
2006 Oct degradation 3 1 GH13, GH13_18
PUL0033 RT-PCR, yeast two hybrid assay, Southern Blot trehalose Spiroplasma citri 12949193
Glucose and trehalose PTS permeases of Spiroplasma citri probably share a single IIA domain, enabling the spiroplasma to adapt quickly to carbohydrate changes in its environment. Microbiology (Reading). 2003 Sep;149(Pt 9):2687-2696. doi: 10.1099/mic.0.26336-0.
2003 Sep degradation 6 1 GH13_29, GH13
PUL0034 enzyme activity assay pectin Dickeya chrysanthemi 12730169
PaeX, a second pectin acetylesterase of Erwinia chrysanthemi 3937. J Bacteriol. 2003 May;185(10):3091-100. doi: 10.1128/jb.185.10.3091-3100.2003.
2003 May degradation 2 1 GH43_18, CE10
PUL0035 enzyme activity assay, Assay of oligogalacturonide uptake in E. coli pectin Dickeya chrysanthemi 11555291
Identification of TogMNAB, an ABC transporter which mediates the uptake of pectic oligomers in Erwinia chrysanthemi 3937. Mol Microbiol. 2001 Sep;41(5):1113-23. doi: 10.1046/j.1365-2958.2001.02564.x.
2001 Sep degradation 5 1 PL2_2
PUL0036 Southern Blot, transposon mutagenesis emulsan Acinetobacter venetianus 11429470
Analysis of the wee gene cluster responsible for the biosynthesis of the polymeric bioemulsifier from the oil-degrading strain Acinetobacter lwoffii RAG-1. Microbiology (Reading). 2001 Jul;147(Pt 7):1937-1946. doi: 10.1099/00221287-147-7-1937.
2001 Jul biosynthesis 22 3 PL12, PL0, GT4
PUL0037 enzyme activity assay raffinose Streptococcus pneumoniae 31591266
Molecular analysis of an enigmatic Streptococcus pneumoniae virulence factor: The raffinose-family oligosaccharide utilization system. J Biol Chem. 2019 Nov 15;294(46):17197-17208. doi: 10.1074/jbc.RA119.010280. Epub 2019 Oct 7.
2019 Nov 15 degradation 7 2 GH13, GH13_18
PUL0038 enzyme activity assay, Southern Blot melibiose, galactose Thermus brockianus 10741834
The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004.
2000 Feb degradation 8 2 GH42, GH36
PUL0039 enzyme activity assay, Southern Blot melibiose, galactose Thermus thermophilus 10741834
The structure of the alpha-galactosidase gene loci in Thermus brockianus ITI360 and Thermus thermophilus TH125. Extremophiles. 2000 Feb;4(1):23-33. doi: 10.1007/s007920050004.
2000 Feb degradation 3 1 GH36
PUL0040 Northern Blot, enzyme activity assay cellulose Ruminiclostridium cellulolyticum 12896991, 1398087, 11844767
A rhamnogalacturonan lyase in the Clostridium cellulolyticum cellulosome. Sequence analysis of a gene cluster encoding cellulases from Clostridium cellulolyticum. Cel9M, a new family 9 cellulase of the Clostridium cellulolyticum cellulosome. J Bacteriol. 2003 Aug;185(16):4727-33. doi: 10.1128/jb.185.16.4727-4733.2003. Gene. 1992 Sep 21;119(1):17-28. doi: 10.1016/0378-1119(92)90062-t. J Bacteriol. 2002 Mar;184(5):1378-84. doi: 10.1128/jb.184.5.1378-1384.2002.
2003 Aug,1992 Sep 21,2002 Mar degradation 6 6 GH9, CBM3, GH9, CBM3, GH5_17, GH9, PL11_1, PL11, GH5_1, GH5
PUL0041 Southern Blot, enzyme activity assay cellobiose Klebsiella oxytoca 9023916
Cloning of cellobiose phosphoenolpyruvate-dependent phosphotransferase genes: functional expression in recombinant Escherichia coli and identification of a putative binding region for disaccharides. Appl Environ Microbiol. 1997 Feb;63(2):355-63. doi: 10.1128/AEM.63.2.355-363.1997.
1997 Feb degradation 3 1 GH1
PUL0042 RT-PCR sucrose Caulobacter vibrioides 30054816
SucA-dependent uptake of sucrose across the outer membrane of Caulobacter crescentus. J Microbiol. 2018 Sep;56(9):648-655. doi: 10.1007/s12275-018-8225-x. Epub 2018 Jul 27.
2018 Sep degradation 4 1 GH13_4
PUL0043 Smith degradation, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 29886169
Structure and gene cluster of the K125 capsular polysaccharide from Acinetobacter baumannii MAR13-1452. Int J Biol Macromol. 2018 Oct 1;117:1195-1199. doi: 10.1016/j.ijbiomac.2018.06.029. Epub 2018 Jun 7.
2018 Oct 1 biosynthesis 23 3 GT4
PUL0044 qRT-PCR, enzyme activity assay arabinoxylan Bacteroides ovatus 26112186, 32266006
Glycan complexity dictates microbial resource allocation in the large intestine. Multimodular fused acetyl-feruloyl esterases from soil and gut Bacteroidetes improve xylanase depolymerization of recalcitrant biomass. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481. Biotechnol Biofuels. 2020 Mar 31;13:60. doi: 10.1186/s13068-020-01698-9. eCollection 2020.
2015 Jun 26,2020 degradation 33 16 GH43, GH43_10, GH3, GH43_12, GH43, GH31, GH97, CBM6, GH43, GH43_29, GH43_12, GH43, GH30_8, CBM35, GH98, GH115, CE6, CE1, CBM6, GH43, GH43_29, GH95, GH30, GH115
PUL0045 qRT-PCR arabinoxylan Bacteroides ovatus 26112186
Glycan complexity dictates microbial resource allocation in the large intestine. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481.
2015 Jun 26 degradation 11 5 GH67, GH43_1, GH43, GH10, CBM4, GH10
PUL0046 NMR, sequence homology analysis O-antigen Escherichia coli 29738687
O-Antigens of Escherichia coli Strains O81 and HS3-104 Are Structurally and Genetically Related, Except O-Antigen Glucosylation in E. coli HS3-104. Biochemistry (Mosc). 2018 May;83(5):534-541. doi: 10.1134/S0006297918050061.
2018 May biosynthesis 16 5 GT2
PUL0047 sugar utilization assay, NMR, sequence homology analysis O-antigen Escherichia albertii 31622726
Escherichia albertii EA046 (O9) harbors two polysaccharide gene clusters for synthesis of the O-antigen by the Wzx/Wzy-dependent pathway and a mannan shared by Escherichia coli O8 by the Wzm/Wzt-dependent pathway. Int J Biol Macromol. 2020 Jan 1;142:609-614. doi: 10.1016/j.ijbiomac.2019.09.135. Epub 2019 Oct 14.
2020 Jan 1 biosynthesis 25 8 GT4, GT4
PUL0048 RNA-Seq trehalose Streptococcus mutans 29632089
Characterization of the Trehalose Utilization Operon in Streptococcus mutans Reveals that the TreR Transcriptional Regulator Is Involved in Stress Response Pathways and Toxin Production. J Bacteriol. 2018 May 24;200(12). pii: JB.00057-18. doi: 10.1128/JB.00057-18. Print 2018 Jun 15.
2018 Jun 15 degradation 3 1 GH13_29, GH13
PUL0049 fosmid library screen beta-glucan, galactomannan feces metagenome 29601586
Two new gene clusters involved in the degradation of plant cell wall from the fecal microbiota of Tunisian dromedary. PLoS One. 2018 Mar 30;13(3):e0194621. doi: 10.1371/journal.pone.0194621. eCollection 2018.
2018 degradation 29 6 GH43_17, GH26, GH16
PUL0050 fosmid library screen cellulose, galactomannan feces metagenome 29601586
Two new gene clusters involved in the degradation of plant cell wall from the fecal microbiota of Tunisian dromedary. PLoS One. 2018 Mar 30;13(3):e0194621. doi: 10.1371/journal.pone.0194621. eCollection 2018.
2018 degradation 20 7 GH5_4, GH5, GH26, GH130, GH3, GH94
PUL0051 sequence homology analysis alginate Cellulophaga lytica 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 6 2 PL6_1, PL6, PL17_2, PL17
PUL0052 sequence homology analysis alginate Maricaulis maris 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 10 2 PL6, PL6_1, PL17, PL17_2
PUL0053 sequence homology analysis alginate Stenotrophomonas maltophilia 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 8 2 PL6_1, PL6, PL17, PL17_2
PUL0054 sequence homology analysis alginate Alteromonas macleodii 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 9 2 PL6, PL6_1, PL17_2, PL17
PUL0055 sequence homology analysis alginate Bacteroides sp. 1_1_30 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 7 2 PL17, PL17_2, PL6, PL6_1
PUL0056 sequence homology analysis alginate Bacteroides eggerthii 29795267
Ancient acquisition of "alginate utilization loci" by human gut microbiota. Sci Rep. 2018 May 23;8(1):8075. doi: 10.1038/s41598-018-26104-1.
2018 May 23 degradation 5 3 PL6_1, PL6, PL17, PL17_2
PUL0057 NMR, sequence homology analysis O-antigen Escherichia coli 29787897
Structural and genetic relatedness of the O-antigens of Escherichia coli O50 and O2. Carbohydr Res. 2018 Jul 15;464:8-11. doi: 10.1016/j.carres.2018.05.001. Epub 2018 May 7.
2018 Jul 15 biosynthesis 13 5 GT4, GT4
PUL0058 enzyme activity assay glycogen Bacillus subtilis 8145641
Glycogen in Bacillus subtilis: molecular characterization of an operon encoding enzymes involved in glycogen biosynthesis and degradation. Mol Microbiol. 1994 Jan;11(1):203-18. doi: 10.1111/j.1365-2958.1994.tb00301.x.
1994 Jan biosynthesis 5 3 GH13, CBM48, GH13_9, GT5, GT35
PUL0059 NMR, sequence homology analysis O-antigen Escherichia coli 29787897
Structural and genetic relatedness of the O-antigens of Escherichia coli O50 and O2. Carbohydr Res. 2018 Jul 15;464:8-11. doi: 10.1016/j.carres.2018.05.001. Epub 2018 May 7.
2018 Jul 15 biosynthesis 13 3 GT2
PUL0060 NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 31421354
Acinetobacter baumannii K116 capsular polysaccharide structure is a hybrid of the K14 and revised K37 structures. Carbohydr Res. 2019 Oct 1;484:107774. doi: 10.1016/j.carres.2019.107774. Epub 2019 Aug 8.
2019 Oct 1 biosynthesis 24 4 GT2, GT2, GT4, GT2
PUL0061 NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 31421354
Acinetobacter baumannii K116 capsular polysaccharide structure is a hybrid of the K14 and revised K37 structures. Carbohydr Res. 2019 Oct 1;484:107774. doi: 10.1016/j.carres.2019.107774. Epub 2019 Aug 8.
2019 Oct 1 biosynthesis 35 4 GT2, GT2, GT4, GT2, GT4, CE4
PUL0062 NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 31421354
Acinetobacter baumannii K116 capsular polysaccharide structure is a hybrid of the K14 and revised K37 structures. Carbohydr Res. 2019 Oct 1;484:107774. doi: 10.1016/j.carres.2019.107774. Epub 2019 Aug 8.
2019 Oct 1 biosynthesis 19 4 GT2, GT2, GT4, GT2
PUL0063 bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry xyloglucan Bacteroides ovatus 31420336
Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20). pii: AEM.01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.
2019 Oct 15 degradation 16 8 GH3, GH2, GH31, GH9, GH5_4, GH43, GH43_12, GH43_12, GH3
PUL0064 bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry xyloglucan Bacteroides cellulosilyticus 31420336
Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20). pii: AEM.01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.
2019 Oct 15 degradation 12 4 GH5, GH5_4, GH31, GH2, GH3
PUL0065 bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry xyloglucan Bacteroides uniformis 31420336
Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20). pii: AEM.01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.
2019 Oct 15 degradation 13 6 GH43_12, GH43, GH5_4, GH5, GH31, GH2, GH3, GH95
PUL0066 bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry xyloglucan Bacteroides fluxus 31420336
Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20). pii: AEM.01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.
2019 Oct 15 degradation 13 6 GH43_12, GH43, GH5, GH5_4, GH31, GH2, GH3, GH95
PUL0067 bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry xyloglucan Dysgonomonas gadei 31420336
Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20). pii: AEM.01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.
2019 Oct 15 degradation 11 6 GH2, GH5_4, GH5, GH31, GH95, GH3, GH43_12
PUL0068 enzyme activity assay, electrophoretic mobility shift assay raffinose Escherichia coli 8277949
Role of two operators in regulating the plasmid-borne raf operon of Escherichia coli. Mol Gen Genet. 1994 Jan;242(1):90-9. doi: 10.1007/BF00277352.
1994 Jan degradation 4 2 GH36, GH32
PUL0069 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 30664967
Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster. Int J Biol Macromol. 2019 May 1;128:101-106. doi: 10.1016/j.ijbiomac.2019.01.080. Epub 2019 Jan 18.
2019 May 1 biosynthesis 22 2 GT0, GT2
PUL0070 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 30664967
Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster. Int J Biol Macromol. 2019 May 1;128:101-106. doi: 10.1016/j.ijbiomac.2019.01.080. Epub 2019 Jan 18.
2019 May 1 biosynthesis 36 3 GT52, GT0, GT14, GT2, GT25, GT4, CE4
PUL0071 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 30664967
Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster. Int J Biol Macromol. 2019 May 1;128:101-106. doi: 10.1016/j.ijbiomac.2019.01.080. Epub 2019 Jan 18.
2019 May 1 biosynthesis 38 4 GT0, GT14, GT2, GT25, GT4, CE4
PUL0072 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 30664967
Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster. Int J Biol Macromol. 2019 May 1;128:101-106. doi: 10.1016/j.ijbiomac.2019.01.080. Epub 2019 Jan 18.
2019 May 1 biosynthesis 22 2 GT2, GT0
PUL0073 sugar utilization assay, NMR, sequence homology analysis capsule polysaccharide Acinetobacter baumannii 30664967
Production of the K16 capsular polysaccharide by Acinetobacter baumannii ST25 isolate D4 involves a novel glycosyltransferase encoded in the KL16 gene cluster. Int J Biol Macromol. 2019 May 1;128:101-106. doi: 10.1016/j.ijbiomac.2019.01.080. Epub 2019 Jan 18.
2019 May 1 biosynthesis 22 2 GT2
PUL0074 sequence homology analysis capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 36 5 GT2, GT4
PUL0075 sequence homology analysis capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 25 5 GT2, GT4, GT2
PUL0076 sequence homology analysis capsule polysaccharide, outer core capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 7 7 GT4, CE4
PUL0077 sequence homology analysis capsule polysaccharide, outer core capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 11 7 GT4, CE4
PUL0078 enzyme activity assay xylan, xylose Caldicellulosiruptor sp. Rt8B.4 8920183
Cloning, sequencing and overexpression in Escherichia coli of a xylanase gene, xynA from the thermophilic bacterium Rt8B.4 genus Caldicellulosiruptor. Appl Microbiol Biotechnol. 1996 Mar;45(1-2):86-93. doi: 10.1007/s002530050653.
1996 Mar degradation 6 1 CBM22, GH10
PUL0079 sequence homology analysis capsule polysaccharide, outer core capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 16 6 CE4, GT4, GT2
PUL0080 sequence homology analysis capsule polysaccharide, outer core capsule polysaccharide Acinetobacter baumannii 31396168
Identification of Potential Virulence Factors in the Model Strain Acinetobacter baumannii A118. Front Microbiol. 2019 Jul 23;10:1599. doi: 10.3389/fmicb.2019.01599. eCollection 2019.
2019 biosynthesis 12 6 CE4, GT4, GT2
PUL0081 qRT-PCR, microarray oligogalacturonide Vibrio parahaemolyticus 31133029
Carbohydrate metabolic systems present on genomic islands are lost and gained in Vibrio parahaemolyticus. BMC Microbiol. 2019 May 27;19(1):112. doi: 10.1186/s12866-019-1487-6.
2019 May 27 degradation 13 2 PL9_1, PL22_1, PL22
PUL0082 electrophoretic mobility shift assay, enzyme activity assay melibiose, raffinose-oligosaccharide, stachyose Bacillus subtilis 31138628
The melREDCA Operon Encodes a Utilization System for the Raffinose Family of Oligosaccharides in Bacillus subtilis. J Bacteriol. 2019 Jul 10;201(15). pii: JB.00109-19. doi: 10.1128/JB.00109-19. Print 2019 Aug 1.
2019 Aug 1 degradation 6 2 GH4
PUL0083 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 12 10 cohesin, CBM3, GH48, GH8, CBM3, GH9, CBM4, CBM30, GH9, CBM3, GH9, CBM3, GH9, GH5_17, GH9, GH5_7, GH5_1
PUL0084 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 12 12 GH10, CBM6, GH43_29, GH43, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43_29, GH43, CBM6, GH27, CBM6, GH59, CBM6, GH62, CE6, CBM6, GH95, CBM32, CE1, CBM6, GH30_8, CBM6
PUL0085 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 3 3 CBM35, GH26, GH9, CBM3, GH9
PUL0086 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 3 3 PL10, PL10_1, CE8, CE12, PL11_1, PL11
PUL0087 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 2 2 CBM3, GH9, CBM3, GH9
PUL0088 Southern Blot raffinose, melibiose, isomaltotriose Streptococcus mutans 8764489
The multiple-sugar metabolism (msm) gene cluster of Streptococcus mutans is transcribed as a single operon. FEMS Microbiol Lett. 1996 Jul 1;140(2-3):261-4. doi: 10.1016/0378-1097(96)00191-7.
1996 Jul 1 degradation 8 3 GH36, GH13_18, GH13
PUL0089 label-free quantitative proteomics, functional enrichment analysis, enzyme activity assay lignocellulose Ruminiclostridium papyrosolvens 31338125
Secretomic analyses of Ruminiclostridium papyrosolvens reveal its enzymatic basis for lignocellulose degradation. Biotechnol Biofuels. 2019 Jul 15;12:183. doi: 10.1186/s13068-019-1522-8. eCollection 2019.
2019 degradation 2 1 GH5, GH5_4, CBM79
PUL0090 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia coli 31220629
Structure elucidation and gene cluster characterization of the O-antigen of Yersinia kristensenii capital ES, Cyrillic-134. Carbohydr Res. 2019 Jul 15;481:9-15. doi: 10.1016/j.carres.2019.06.001. Epub 2019 Jun 6.
2019 Jul 15 biosynthesis 12 4 GT4, GT4, GT4
PUL0091 sequence homology analysis O-glycan, N-glycan Bacteroides vulgatus 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 8 6 CE9, GH2, GH92, GH20, GH20, GH2
PUL0092 sequence homology analysis O-glycan, N-glycan Bacteroides vulgatus 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 10 4 GH20, GH2, GH20, GH33
PUL0093 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 24 7 CE9, GH2, GH92, GH20, GH20, GH2
PUL0094 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 25 5 GH27, GH33, GH20, GH2, GH20
PUL0095 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 17 5 GH27, GH33, GH20, GH2, GH20
PUL0096 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 22 10 GH33, GH20, GH2, GH20, GH20, GH92, GH2, CE9, GH29, GH97
PUL0097 sequence homology analysis O-glycan, N-glycan Bacteroides massiliensis 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 15 10 GH33, GH20, GH2, GH20, GH20, GH92, GH2, CE9
PUL0098 sequence homology analysis O-glycan, N-glycan Bacteroides plebeius 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 12 3 GH33
PUL0099 RNA-Seq, substrate binding assay, enzyme activity assay, mass spectrometry beta-mannan Roseburia intestinalis 30796211
The human gut Firmicute Roseburia intestinalis is a primary degrader of dietary beta-mannans. Nat Commun. 2019 Feb 22;10(1):905. doi: 10.1038/s41467-019-08812-y.
2019 Feb 22 degradation 3 2 CBM27, GH26, CBM23, GH3, GH3
PUL0100 transposon mutagenesis, growth assay chitobiose Escherichia coli 9405618
Wild-type Escherichia coli grows on the chitin disaccharide, N,N'-diacetylchitobiose, by expressing the cel operon. Proc Natl Acad Sci U S A. 1997 Dec 23;94(26):14367-71. doi: 10.1073/pnas.94.26.14367.
1997 Dec 23 degradation 6 1 GH4
PUL0101 sequence homology analysis O-glycan, N-glycan Bacteroides plebeius 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 19 5 CBM67, GH78, GH3, GH115, GH97
PUL0102 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 25 4 GH20, GH29, GH33, CBM67, GH78
PUL0103 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 31 2 CBM67, GH78, GH33
PUL0104 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 33 3 GH33, CBM67, GH78
PUL0105 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 36 5 GH33, CBM67, GH78, GH3, GH115, GH97
PUL0106 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 22 4 GH20, GH2, GH2, GH2
PUL0107 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 27 4 GH1
PUL0108 sequence homology analysis O-glycan, N-glycan Bacteroides uniformis 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 27 3 GH2, GH3
PUL0109 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 28 3 GH2
PUL0110 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 28 3 GH2
PUL0111 enzyme activity assay, Northern Blot, transport assay melibiose Escherichia coli 9642246
Conversion of temperature-sensitive to -resistant gene expression due to mutations in the promoter region of the melibiose operon in Escherichia coli. J Biol Chem. 1998 Jul 3;273(27):16860-4. doi: 10.1074/jbc.273.27.16860.
1998 Jul 3 degradation 3 1 GH4
PUL0112 fosmid library screen, lectin binding assay O-glycan, N-glycan uncultured bacterium 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 25 1 GH20, GH2, GH2, GH2
PUL0113 sequence homology analysis O-glycan, N-glycan Faecalibacterium prausnitzii 31275257
Investigating Host Microbiota Relationships Through Functional Metagenomics. Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.
2019 degradation 23 1 GH1
PUL0114 recombinant protein expression, enzyme activity assay arabinofuranose Ruminiclostridium cellulolyticum 31198441
The xyl-doc gene cluster of Ruminiclostridium cellulolyticum encodes GH43- and GH62-alpha-l-arabinofuranosidases with complementary modes of action. Biotechnol Biofuels. 2019 Jun 10;12:144. doi: 10.1186/s13068-019-1483-y. eCollection 2019.
2019 degradation 14 14 GH43, GH43_16, CBM6, GH10, CBM6, GH43, GH43_29, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43, GH43_29, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6, GH62, CE6, CBM6, CBM32, GH95, CBM6, GH30_8, CBM6
PUL0115 expression of recombinant proteins, RNA-Seq, differential gene expression N-glycan Bacteroides thetaiotaomicron 31160824
Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3.
2019 Sep degradation 7 7 GH33, GH20, GH2, GH20, GH20, GH2
PUL0116 expression of recombinant proteins, RNA-Seq, differential gene expression N-glycan Bacteroides thetaiotaomicron 31160824
Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3.
2019 Sep degradation 2 1 GH20
PUL0117 expression of recombinant proteins, RNA-Seq, differential gene expression N-glycan Bacteroides thetaiotaomicron 31160824
Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3.
2019 Sep degradation 22 4 GH92, GH130, GH163, GH20
PUL0118 qRT-PCR, affinity gel electrophoresis, isothermal titration calorimetry laminarin, beta-glucan Bacteroides uniformis 32265336
Synergy between Cell Surface Glycosidases and Glycan-Binding Proteins Dictates the Utilization of Specific Beta(1,3)-Glucans by Human Gut Bacteroides. mBio. 2020 Apr 7;11(2). pii: mBio.00095-20. doi: 10.1128/mBio.00095-20.
2020 Apr 7 degradation 7 3 CBM6, GH3, GH158, GH16
PUL0119 expression of recombinant proteins, RNA-Seq, differential gene expression N-glycan Bacteroides thetaiotaomicron 31160824
Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3.
2019 Sep degradation 2 1 CBM32, GH29
PUL0120 expression of recombinant proteins, RNA-Seq, differential gene expression N-glycan, mucin Bacteroides thetaiotaomicron 31160824
Complex N-glycan breakdown by gut Bacteroides involves an extensive enzymatic apparatus encoded by multiple co-regulated genetic loci. Nat Microbiol. 2019 Sep;4(9):1571-1581. doi: 10.1038/s41564-019-0466-x. Epub 2019 Jun 3.
2019 Sep degradation 6 2 CBM14, GH18
PUL0121 fosmid library screen 4-methylumbelliferyl 6-azido-6-deoxy-beta-D-galactoside uncultured bacterium 31164449
High-Throughput Recovery and Characterization of Metagenome-Derived Glycoside Hydrolase-Containing Clones as a Resource for Biocatalyst Development. mSystems. 2019 Jun 4;4(4). pii: 4/4/e00082-19. doi: 10.1128/mSystems.00082-19.
2019 Jun 4 degradation 36 2 GH13_23, GH1
PUL0122 enzyme activity assay alpha-galactoside, beta-galactoside, raffinose, melibiose Thermotoga maritima 9741105
Properties of an alpha-galactosidase, and structure of its gene galA, within an alpha-and beta-galactoside utilization gene cluster of the hyperthermophilic bacterium Thermotoga maritima. Syst Appl Microbiol. 1998 Mar;21(1):1-11. doi: 10.1016/s0723-2020(98)80002-7.
1998 Mar degradation 6 3 GH42, GH2, GH36
PUL0123 fosmid library screen 4-methylumbelliferyl 6-azido-6-deoxy-beta-D-galactoside uncultured bacterium 31164449
High-Throughput Recovery and Characterization of Metagenome-Derived Glycoside Hydrolase-Containing Clones as a Resource for Biocatalyst Development. mSystems. 2019 Jun 4;4(4). pii: 4/4/e00082-19. doi: 10.1128/mSystems.00082-19.
2019 Jun 4 degradation 37 2 GH63, CBM67, GH78
PUL0124 fosmid library screen 4-methylumbelliferyl 6-azido-6-deoxy-beta-D-galactoside uncultured bacterium 31164449
High-Throughput Recovery and Characterization of Metagenome-Derived Glycoside Hydrolase-Containing Clones as a Resource for Biocatalyst Development. mSystems. 2019 Jun 4;4(4). pii: 4/4/e00082-19. doi: 10.1128/mSystems.00082-19.
2019 Jun 4 degradation 33 2 GH13, GH13_23, GH1
PUL0125 affinity gel electrophoresis, carbohydrate binding assay, RNA-seq beta-glucan Bacteroides ovatus 31062073, 32801182
Surface glycan-binding proteins are essential for cereal beta-glucan utilization by the human gut symbiont Bacteroides ovatus. Sharing a beta-Glucan Meal: Transcriptomic Eavesdropping on a Bacteroides ovatus-Subdoligranulum variabile-Hungatella hathewayi Consortium. Cell Mol Life Sci. 2019 Nov;76(21):4319-4340. doi: 10.1007/s00018-019-03115-3. Epub 2019 May 6. Appl Environ Microbiol. 2020 Oct 1;86(20). pii: AEM.01651-20. doi: 10.1128/AEM.01651-20. Print 2020 Oct 1.
2019 Nov,2020 Oct 1 degradation 6 2 GH16, GH3
PUL0126 growth assay, sequence homology analysis alginate, ulvan Alteromonas sp. 76-1 30936857
Adaptations of Alteromonas sp. 76-1 to Polysaccharide Degradation: A CAZyme Plasmid for Ulvan Degradation and Two Alginolytic Systems. Front Microbiol. 2019 Mar 18;10:504. doi: 10.3389/fmicb.2019.00504. eCollection 2019.
2019 degradation 8 2 PL7, PL7_5, PL6, PL6_1
PUL0127 growth assay, sequence homology analysis alginate, ulvan Alteromonas sp. 76-1 30936857
Adaptations of Alteromonas sp. 76-1 to Polysaccharide Degradation: A CAZyme Plasmid for Ulvan Degradation and Two Alginolytic Systems. Front Microbiol. 2019 Mar 18;10:504. doi: 10.3389/fmicb.2019.00504. eCollection 2019.
2019 degradation 12 3 PL7, PL7_5, CBM32, PL6_3, PL6, PL7, PL7_5, PL6, PL6_1
PUL0128 RT-PCR, enzyme activity assay hemicellulose Bifidobacterium longum subsp. longum JCM 1217 30635377
Two Novel alpha-l-Arabinofuranosidases from Bifidobacterium longum subsp. longum Belonging to Glycoside Hydrolase Family 43 Cooperatively Degrade Arabinan. Appl Environ Microbiol. 2019 Mar 6;85(6). pii: AEM.02582-18. doi: 10.1128/AEM.02582-18. Print 2019 Mar 15.
2019 Mar 15 degradation 24 8 GH43, GH43_24, GH30_5, GH30, CBM13, GH146, GH43, GH43_34, GH43_22, GH43, GH43_22, GH43_26, GH43_27, GH43, GH43_22, GH43_22
PUL0129 enzyme activity assay mannan gut metagenome 30356154
Interspecies cross-feeding orchestrates carbon degradation in the rumen ecosystem. Nat Microbiol. 2018 Nov;3(11):1274-1284. doi: 10.1038/s41564-018-0225-4. Epub 2018 Oct 24.
2018 Nov degradation 12 6 GH5, GH5_4, GH26, GH26, GH5, GH5_4, CE7, CE7, GH26, GH130
PUL0130 NMR, mass spectrometry O-antigen Yersinia rohdei 30385338
Structure and gene cluster of the O-polysaccharide of Yersinia rohdei H274-36/78. Int J Biol Macromol. 2019 Feb 1;122:555-561. doi: 10.1016/j.ijbiomac.2018.10.189. Epub 2018 Oct 29.
2019 Feb 1 biosynthesis 11 3 GT4, GT4
PUL0131 sequence homology analysis O-antigen Acidiphilium rubrum 30385338
Structure and gene cluster of the O-polysaccharide of Yersinia rohdei H274-36/78. Int J Biol Macromol. 2019 Feb 1;122:555-561. doi: 10.1016/j.ijbiomac.2018.10.189. Epub 2018 Oct 29.
2019 Feb 1 biosynthesis 12 3 GT4, GT4, GT4
PUL0132 enzyme activity assay hemicellulose Zobellia galactanivorans 30341165
The laterally acquired GH5 ZgEngAGH5_4 from the marine bacterium Zobellia galactanivorans is dedicated to hemicellulose hydrolysis. Biochem J. 2018 Nov 28;475(22):3609-3628. doi: 10.1042/BCJ20180486.
2018 Nov 28 degradation 8 1 GH5, GH5_4, CBM4
PUL0133 sequence homology analysis exopolysaccharide Lactobacillus acidophilus 15671160
Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM. Proc Natl Acad Sci U S A. 2005 Mar 15;102(11):3906-12. doi: 10.1073/pnas.0409188102. Epub 2005 Jan 25.
2005 Mar 15 biosynthesis 14 3 GT2, GT2
PUL0134 sequence homology analysis pectin Gramella flava 30341080
Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1). pii: AEM.02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1.
2019 Jan 1 degradation 29 10 CE8, PL9_1, GH28, GH105, GH43_10, GH28, PL9_1, CE12, CE8, CE10, CE12, PL10_1
PUL0135 enzyme activity assay, carbohydrate binding assay pectin Pseudoalteromonas sp. 30341080
Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1). pii: AEM.02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1.
2019 Jan 1 degradation 21 8 CE12, CE4, GH28, GH105, GH105, GH43, GH43_10, CE8, PL1_2
PUL0136 sequence homology analysis pectin Pseudoalteromonas haloplanktis 30341080
Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1). pii: AEM.02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1.
2019 Jan 1 degradation 26 6 PL1, PL1_5, CE8, PL1, PL1_2, GH105, GH105, GH28
PUL0137 sequence homology analysis lactose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 3 1 GH2
PUL0138 sequence homology analysis raffinose, melibiose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 7 2 GH36, GH36
PUL0139 sequence homology analysis arabinose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 12 1 GH51
PUL0140 sequence homology analysis xylose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 11 5 GH43, GH43_12, GH43, GH43_11, GH43_10
PUL0141 sequence homology analysis sucrose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 4 1 GH13_18, GH13
PUL0142 sequence homology analysis maltose Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 5 1 GH13_30
PUL0143 sequence homology analysis exopolysaccharide Bifidobacterium animalis subsp. animalis 30306201
Staying alive: growth and survival of Bifidobacterium animalis subsp. animalis under in vitro and in vivo conditions. Appl Microbiol Biotechnol. 2018 Dec;102(24):10645-10663. doi: 10.1007/s00253-018-9413-7. Epub 2018 Oct 10.
2018 Dec degradation 12 3 GT2, GT32
PUL0144 enzyme activity assay, Western Blot chitin Thermococcus kodakarensis 16199574
Characterization of a novel glucosamine-6-phosphate deaminase from a hyperthermophilic archaeon. J Bacteriol. 2005 Oct;187(20):7038-44. doi: 10.1128/JB.187.20.7038-7044.2005.
2005 Oct degradation 12 3 GH35, GH1, CBM2, GH18
PUL0145 enzyme activity assay glycosaminoglycan, chondroitin sulfate Bacteroides thetaiotaomicron 30262663
The human gut microbe Bacteroides thetaiotaomicron encodes the founding member of a novel glycosaminoglycan-degrading polysaccharide lyase family PL29. J Biol Chem. 2018 Nov 16;293(46):17906-17916. doi: 10.1074/jbc.RA118.004510. Epub 2018 Sep 27.
2018 Nov 16 degradation 27 5 PL8, PL8_2, PL29, GH2, GH88, PL8_2
PUL0146 sequence homology analysis carrageenan Pseudoalteromonas atlantica 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 23 1 GH16
PUL0147 sequence homology analysis carrageenan Pseudoalteromonas carrageenovora 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 30 5 GH16, GH16, GH150
PUL0148 sequence homology analysis carrageenan Zobellia galactanivorans 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 15 4 GH127, GH127, GH127, GH129
PUL0149 sequence homology analysis carrageenan Zobellia galactanivorans 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 10 2 GH110, GH110
PUL0150 sequence homology analysis alginate Pseudoalteromonas carrageenovora 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 14 3 PL6, PL6_1, PL17, PL17_2, PL6_3
PUL0151 sequence homology analysis, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay alginate Zobellia galactanivorans 30524390, 32585009
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533.
2018,2020 Aug 20 degradation 12 2 PL7, PL17_2, PL17
PUL0152 sequence homology analysis alginate Pseudoalteromonas atlantica 30524390
Evolutionary Evidence of Algal Polysaccharide Degradation Acquisition by Pseudoalteromonas carrageenovora 9(T) to Adapt to Macroalgal Niches. Front Microbiol. 2018 Nov 22;9:2740. doi: 10.3389/fmicb.2018.02740. eCollection 2018.
2018 degradation 8 1 PL6, PL6_1
PUL0153 RNA-Seq lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 3 1 GH1
PUL0154 RNA-Seq, differential gene expression lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 3 1 GH1
PUL0155 enzyme activity assay alginate Agrobacterium fabrum 16545947
A biosystem for alginate metabolism in Agrobacterium tumefaciens strain C58: molecular identification of Atu3025 as an exotype family PL-15 alginate lyase. Res Microbiol. 2006 Sep;157(7):642-9. doi: 10.1016/j.resmic.2006.02.006. Epub 2006 Mar 2.
2006 Sep degradation 8 1 PL15_1
PUL0156 RNA-Seq, differential gene expression lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 2 2 GH2
PUL0157 RNA-Seq, differential gene expression lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 4 1 GH1
PUL0158 RNA-Seq, differential gene expression lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 4 1 GH1
PUL0159 RNA-Seq, differential gene expression lactose Lactobacillus rhamnosus 30332787
Prebiotics for Lactose Intolerance: Variability in Galacto-Oligosaccharide Utilization by Intestinal Lactobacillus rhamnosus. Nutrients. 2018 Oct 16;10(10). pii: nu10101517. doi: 10.3390/nu10101517.
2018 Oct 16 degradation 2 2 GH2
PUL0160 mass spectrometry, sequence homology analysis alpha-mannan Salegentibacter sp. Hel_I_6 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 33 10 GH92, GH92, GH43, GH43_34, GH125, CBM32, GH92, GH92, GH92, GH76, GH2, GH92
PUL0161 mass spectrometry, sequence homology analysis alpha-mannan Bacteroides thetaiotaomicron 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 26 6 GH97, GH67, GH76, GH92, GH76, GH125
PUL0162 mass spectrometry, sequence homology analysis alpha-mannan Bacteroides thetaiotaomicron 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 13 2 GH92, GH99
PUL0163 mass spectrometry, sequence homology analysis alpha-mannan Bacteroides thetaiotaomicron 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 21 7 GH92, GH38, CBM32, GT32, GT32, GH130, GH125, GH76, GH92, GH76
PUL0164 mass spectrometry, sequence homology analysis, differential gene expression beta-mannan Leeuwenhoekiella sp. MAR_2009_132 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 19 9 CE2, GH3, GH5_7, GH26, GH130, GH26, GH5_2, GH5, GH27, GH9, GH26
PUL0165 mass spectrometry, sequence homology analysis, differential gene expression beta-mannan Salegentibacter sp. Hel_I_6 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 17 6 GH9, GH27, GH5, GH5_2, GH26, GH130, GH26
PUL0166 enzyme activity assay, RT-PCR starch Bacteroides fragilis 16788175
Characterization of the primary starch utilization operon in the obligate anaerobe Bacteroides fragilis: Regulation by carbon source and oxygen. J Bacteriol. 2006 Jul;188(13):4663-72. doi: 10.1128/JB.00125-06.
2006 Jul degradation 5 1 GH13_10, GH13
PUL0167 mass spectrometry, sequence homology analysis beta-mannan Bacteroides ovatus 30246424
Alpha- and beta-mannan utilization by marine Bacteroidetes. Environ Microbiol. 2018 Nov;20(11):4127-4140. doi: 10.1111/1462-2920.14414. Epub 2018 Oct 16.
2018 Nov degradation 12 4 GH130, GH36, GH26, GH26
PUL0168 gene deletion mutant and growth assay galactose Lactococcus lactis subsp. lactis 30099846
GlaR (YugA)-a novel RpiR-family transcription activator of the Leloir pathway of galactose utilization in Lactococcus lactis IL1403. Microbiologyopen. 2019 May;8(5):e00714. doi: 10.1002/mbo3.714. Epub 2018 Aug 11.
2019 May degradation 9 1 GH2
PUL0169 enzyme activity assay, qRT-PCR arabinofuranooligosaccharide Xanthomonas euvesicatoria 30092047
Functional characterization of unique enzymes in Xanthomonas euvesicatoria related to degradation of arabinofurano-oligosaccharides on hydroxyproline-rich glycoproteins. PLoS One. 2018 Aug 9;13(8):e0201982. doi: 10.1371/journal.pone.0201982. eCollection 2018.
2018 degradation 9 3 GH146, GH43, GH43_29, GH121
PUL0170 enzyme activity assay beta-glucan Bacteroides ovatus 29141231
Molecular Mechanism by which Prominent Human Gut Bacteroidetes Utilize Mixed-Linkage Beta-Glucans, Major Health-Promoting Cereal Polysaccharides. Cell Rep. 2017 Nov 14;21(7):2030. doi: 10.1016/j.celrep.2017.11.013.
2017 Nov 14 degradation 7 3 GH3, GH16, GH3
PUL0171 qRT-PCR, RNA-Seq N-glycan Bacteroides fragilis 27353652
cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides. J Bacteriol. 2016 Aug 25;198(18):2410-8. doi: 10.1128/JB.00381-16. Print 2016 Sep 15.
2016 Sep 15 degradation 7 1 GH18
PUL0172 gene deletion mutant and growth assay, NMR, sugar utilization assay O-antigen Franconibacter pulveris 27166227
O antigen of FranconibacterpulverisG3872 (O1) is a 4-deoxy-d-arabino-hexose-containing polysaccharide synthesized by the ABC-transporter-dependent pathway. Microbiology (Reading). 2016 Jul;162(7):1103-1113. doi: 10.1099/mic.0.000307. Epub 2016 May 10.
2016 Jul biosynthesis 9 3 GT2
PUL0173 sequence homology analysis, NMR, sugar utilization assay O-antigen Escherichia coli 27177202
Structure and gene cluster of the O-antigen of Escherichia coli O156 containing a pyruvic acid acetal. Carbohydr Res. 2016 Jul 22;430:24-28. doi: 10.1016/j.carres.2016.04.025. Epub 2016 Apr 29.
2016 Jul 22 biosynthesis 20 4 GT4, GT4, GT2
PUL0174 RT-PCR, enzyme activity assay, enzymatic product analysis starch Kribbella flavida 27302067
Two Novel Glycoside Hydrolases Responsible for the Catabolism of Cyclobis-(1-->6)-alpha-nigerosyl. J Biol Chem. 2016 Aug 5;291(32):16438-47. doi: 10.1074/jbc.M116.727305. Epub 2016 Jun 14.
2016 Aug 5 degradation 3 2 CBM20, GH31, CBM35, GH31
PUL0175 enzyme activity assay galactomannan Cellvibrio mixtus 16842369
Galactomannan hydrolysis and mannose metabolism in Cellvibrio mixtus. FEMS Microbiol Lett. 2006 Aug;261(1):123-32. doi: 10.1111/j.1574-6968.2006.00342.x.
2006 Aug degradation 4 3 GH130, GH5_7, GH5, GH27
PUL0176 RT-PCR, enzyme activity assay, enzymatic product analysis isomaltose Kribbella flavida 27302067
Two Novel Glycoside Hydrolases Responsible for the Catabolism of Cyclobis-(1-->6)-alpha-nigerosyl. J Biol Chem. 2016 Aug 5;291(32):16438-47. doi: 10.1074/jbc.M116.727305. Epub 2016 Jun 14.
2016 Aug 5 degradation 6 2 GH31, GH15
PUL0177 NMR, sugar utilization assay O-antigen Escherichia coli 27293097
Structure and Biosynthesis Gene Cluster of the O-Antigen of Escherichia coli O12. Biochemistry (Mosc). 2016 Apr;81(4):401-6. doi: 10.1134/S0006297916040106.
2016 Apr biosynthesis 15 4 GT4
PUL0178 enzyme activity assay, enzyme specificity assay, substrate specificity assay galactomannan Bacteroides ovatus 27288925, 22205877
A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2016 Jul,2011 Dec degradation 14 4 GH130, GH36, GH26, GH26
PUL0179 enzyme activity assay, enzyme specificity assay, substrate specificity assay galactomannan Bacteroides ovatus 27288925
A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28.
2016 Jul degradation 15 3 CE7, GH130, GH26, GH26
PUL0180 enzyme activity assay galactomannan Bacteroides fragilis 27288925, 21539815
A beta-mannan utilization locus in Bacteroides ovatus involves a GH36 alpha-galactosidase active on galactomannans. New microbial mannan catabolic pathway that involves a novel mannosylglucose phosphorylase. FEBS Lett. 2016 Jul;590(14):2106-18. doi: 10.1002/1873-3468.12250. Epub 2016 Jun 28. Biochem Biophys Res Commun. 2011 May 20;408(4):701-6. doi: 10.1016/j.bbrc.2011.04.095. Epub 2011 Apr 24.
2016 Jul,2011 May 20 degradation 19 4 GH36, GH29, GH29
PUL0181 NMR, sugar utilization assay O-antigen Escherichia coli 27083849
Structure of the beta-l-fucopyranosyl phosphate-containing O-specific polysaccharide of Escherichia coli O84. Int J Biol Macromol. 2016 Jul;88:578-85. doi: 10.1016/j.ijbiomac.2016.04.025. Epub 2016 Apr 13.
2016 Jul biosynthesis 19 5 GT4, GT2
PUL0182 NMR, sugar utilization assay O-antigen Escherichia coli 27058293
Structures and genetics of biosynthesis of glycerol 1-phosphate-containing O-polysaccharides of Escherichia coli O28ab, O37, and O100. Carbohydr Res. 2016 May 13;426:26-32. doi: 10.1016/j.carres.2016.03.011. Epub 2016 Mar 29.
2016 May 13 biosynthesis 12 3 GT2
PUL0183 NMR, sugar utilization assay O-antigen Escherichia coli 27058293
Structures and genetics of biosynthesis of glycerol 1-phosphate-containing O-polysaccharides of Escherichia coli O28ab, O37, and O100. Carbohydr Res. 2016 May 13;426:26-32. doi: 10.1016/j.carres.2016.03.011. Epub 2016 Mar 29.
2016 May 13 biosynthesis 15 3 GT2
PUL0184 NMR, sugar utilization assay O-antigen Escherichia coli 27058293
Structures and genetics of biosynthesis of glycerol 1-phosphate-containing O-polysaccharides of Escherichia coli O28ab, O37, and O100. Carbohydr Res. 2016 May 13;426:26-32. doi: 10.1016/j.carres.2016.03.011. Epub 2016 Mar 29.
2016 May 13 biosynthesis 20 3 GT4
PUL0185 isothermal calorimetric titration, gene deletion mutant and growth assay mannan Bacillus sp. N16-5 26978267
A Novel Manno-Oligosaccharide Binding Protein Identified in Alkaliphilic Bacillus sp. N16-5 Is Involved in Mannan Utilization. PLoS One. 2016 Mar 15;11(3):e0150059. doi: 10.1371/journal.pone.0150059. eCollection 2016.
2016 degradation 12 6 GH130, GH130, GH27, CE7
PUL0186 gene deletion mutant and growth assay cellobiose Streptococcus pneumoniae 17028271
The two-component regulatory system TCS08 is involved in cellobiose metabolism of Streptococcus pneumoniae R6. J Bacteriol. 2007 Feb;189(4):1342-50. doi: 10.1128/JB.01170-06. Epub 2006 Oct 6.
2007 Feb degradation 7 1 GH1
PUL0187 qRT-PCR, enzyme activity assay beta-glucan Paenibacillus sp. JDR-2 26746717
A 1,3-1,4-beta-Glucan Utilization Regulon in Paenibacillus sp. Strain JDR-2. Appl Environ Microbiol. 2016 Jan 8;82(6):1789-1798. doi: 10.1128/AEM.03526-15.
2016 Jan 8 degradation 7 2 CBM4, CBM54, CBM6, GH16, GH16
PUL0188 NMR, sugar utilization assay O-antigen Escherichia coli 26582605
Structure and gene cluster of the O-antigen of Escherichia coli O165 containing 5-N-acetyl-7-N-[(R)-3-hydroxybutanoyl]pseudaminic acid. Glycobiology. 2016 Apr;26(4):335-42. doi: 10.1093/glycob/cwv106. Epub 2015 Nov 17.
2016 Apr biosynthesis 10 3 GT0, GT2
PUL0189 RNA-Seq, RT-PCR, qPCR pectin Bacteroides xylanisolvens 26920945
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1.
2016 Feb 27 degradation 17 7 GH95, GH140, CBM67, GH78, GH33, GH28, GH78, CBM67, GH43_18, GH43, PL1, CE8, PL1_2, GH92
PUL0190 RNA-Seq, RT-PCR, qPCR pectin Bacteroides xylanisolvens 26920945
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1.
2016 Feb 27 degradation 15 5 GH51, GH146, GH43, GH43_4, GH43_4, GH51, GH43_29
PUL0191 RNA-Seq, RT-PCR, qPCR pectin Bacteroides xylanisolvens 26920945
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1.
2016 Feb 27 degradation 11 5 GH105, CE8, CE8, CE12, CE4, PL1_2, PL1_2
PUL0192 RNA-Seq, RT-PCR, qPCR pectin Bacteroides xylanisolvens 26920945
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1.
2016 Feb 27 degradation 27 12 GH106, GH28, GH28, CE12, GH2, GH43_18, GH43_34, GH43, CBM32, GH42, GH28, PL11, PL11_1, PL26, CE12, GH105, PL11_1, GH105
PUL0193 RNA-Seq, RT-PCR, qPCR pectin Bacteroides xylanisolvens 26920945
Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1.
2016 Feb 27 degradation 30 10 GH2, PL11_1, PL11, GH28, GH117, PL11_1, PL11, GH28, GH105, GH28
PUL0194 enzyme activity assay, gene deletion mutant and growth assay N-glycan Streptococcus pneumoniae 28056108
Molecular Characterization of N-glycan Degradation and Transport in Streptococcus pneumoniae and Its Contribution to Virulence. PLoS Pathog. 2017 Jan 5;13(1):e1006090. doi: 10.1371/journal.ppat.1006090. eCollection 2017 Jan.
2017 Jan degradation 6 5 GH20, GH38, GH125, GH92, GH29
PUL0195 RT-PCR cellobiose Clostridium acetobutylicum 26691835
PTS regulation domain-containing transcriptional activator CelR and sigma factor sigma(54) control cellobiose utilization in Clostridium acetobutylicum. Mol Microbiol. 2016 Apr;100(2):289-302. doi: 10.1111/mmi.13316. Epub 2016 Feb 9.
2016 Apr degradation 5 1 GH1
PUL0196 enzyme activity assay lacto-n-triose Lactobacillus casei 26546429
The Extracellular Wall-Bound beta-N-Acetylglucosaminidase from Lactobacillus casei Is Involved in the Metabolism of the Human Milk Oligosaccharide Lacto-N-Triose. Appl Environ Microbiol. 2015 Nov 6;82(2):570-7. doi: 10.1128/AEM.02888-15. Print 2016 Jan 15.
2016 Jan 15 degradation 10 2 GH20, CE9
PUL0197 gene deletion mutant and growth assay maltose Streptococcus mutans 17233733
Overlapping substrate specificity for sucrose and maltose of two binding protein-dependent sugar uptake systems in Streptococcus mutans. FEMS Microbiol Lett. 2007 Jan;266(2):218-23. doi: 10.1111/j.1574-6968.2006.00522.x.
2007 Jan degradation 7 2 GT35, GH77
PUL0198 NMR, sugar utilization assay O-antigen Escherichia coli 26706815
Structure and gene cluster of the o-antigen of Escherichia coli o96. Carbohydr Res. 2016 Feb;420:1-5. doi: 10.1016/j.carres.2015.11.005. Epub 2015 Nov 23.
2016 Feb biosynthesis 13 6 GT2, GT2
PUL0199 enzyme activity assay, liquid chromatography and mass spectrometry alginate Saccharophagus degradans 26458373
Putative Alginate Assimilation Process of the Marine Bacterium Saccharophagus degradans 2-40 Based on Quantitative Proteomic Analysis. Mar Biotechnol (NY). 2016 Feb;18(1):15-23. doi: 10.1007/s10126-015-9667-3. Epub 2015 Oct 12.
2016 Feb degradation 17 7 CBM16, PL18, CBM32, PL6_1, PL6, PL6_1, PL6, PL17, PL17_2, PL6_1, PL6, PL7_5
PUL0200 NMR, sugar utilization assay O-antigen Escherichia coli 26451883
Structure and genetics of biosynthesis of the glycosyl phosphate-containing O-polysaccharide of Escherichia coli O160. Carbohydr Res. 2015 Nov 19;417:89-93. doi: 10.1016/j.carres.2015.09.007. Epub 2015 Sep 16.
2015 Nov 19 biosynthesis 13 4 GT2, GT2
PUL0201 NMR, sugar utilization assay O-antigen Escherichia coli 26382081
Structure elucidation and biosynthesis gene cluster organization of the O-antigen of Escherichia coli O170. Carbohydr Res. 2015 Nov 19;417:11-4. doi: 10.1016/j.carres.2015.08.013. Epub 2015 Aug 28.
2015 Nov 19 biosynthesis 13 4 GT2
PUL0202 NMR, sugar utilization assay O-antigen Escherichia coli 26342864
Structure and gene cluster of the O-antigen of Escherichia coli O43. Carbohydr Res. 2015 Oct 30;416:32-6. doi: 10.1016/j.carres.2015.08.008. Epub 2015 Aug 18.
2015 Oct 30 biosynthesis 19 4 GT4, GT2
PUL0203 qPCR, thin layer chromatography, substrate binding assay exopolysaccharide Bacteroides thetaiotaomicron 25841008
Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3.
2015 Jun 15 degradation 7 3 GH32, GH32, GH32
PUL0204 qPCR, thin layer chromatography, substrate binding assay exopolysaccharide Bacteroides thetaiotaomicron 25841008
Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3.
2015 Jun 15 degradation 7 3 GH97
PUL0205 qPCR, thin layer chromatography, substrate binding assay exopolysaccharide Bacteroides thetaiotaomicron 25841008
Differential Metabolism of Exopolysaccharides from Probiotic Lactobacilli by the Human Gut Symbiont Bacteroides thetaiotaomicron. Appl Environ Microbiol. 2015 Jun 15;81(12):3973-83. doi: 10.1128/AEM.00149-15. Epub 2015 Apr 3.
2015 Jun 15 degradation 6 3 GH31, GH31, GH66
PUL0206 gene deletion mutant and growth assay mucin Capnocytophaga canimorsus 25736888
Glycan-foraging systems reveal the adaptation of Capnocytophaga canimorsus to the dog mouth. mBio. 2015 Mar 3;6(2):e02507. doi: 10.1128/mBio.02507-14.
2015 Mar 3 degradation 8 1 GH2
PUL0207 enzyme activity assay N-glycan Streptococcus agalactiae 25605731
Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase. J Biol Chem. 2015 Mar 6;290(10):6281-92. doi: 10.1074/jbc.M114.604546. Epub 2015 Jan 20.
2015 Mar 6 degradation 7 2 PL12, PL12_1, GH88
PUL0208 growth assay chitin Pseudoalteromonas luteoviolacea 31213521
Marine Chitinolytic Pseudoalteromonas Represents an Untapped Reservoir of Bioactive Potential. mSystems. 2019 Jun 18;4(4). pii: 4/4/e00060-19. doi: 10.1128/mSystems.00060-19.
2019 Jun 18 degradation 3 3 CBM5, GH18, CBM5, AA10, CBM5, GH18
PUL0209 enzyme activity assay, gene deletion mutant and growth assay galactan Dickeya dadantii 17644603
Characterization of the Erwinia chrysanthemi Gan locus, involved in galactan catabolism. J Bacteriol. 2007 Oct;189(19):7053-61. doi: 10.1128/JB.00845-07. Epub 2007 Jul 20.
2007 Oct degradation 9 2 GH42, GH53
PUL0210 enzyme activity assay N-glycan Clostridium perfringens 25605731
Metabolic fate of unsaturated glucuronic/iduronic acids from glycosaminoglycans: molecular identification and structure determination of streptococcal isomerase and dehydrogenase. J Biol Chem. 2015 Mar 6;290(10):6281-92. doi: 10.1074/jbc.M114.604546. Epub 2015 Jan 20.
2015 Mar 6 degradation 13 3 PL8, GH88, PL12_1
PUL0211 enzyme activity assay, gene deletion mutant and growth assay, thin layer chromatography N-glycan Xanthomonas campestris pv. campestris 25586188, 25205095
The N-Glycan cluster from Xanthomonas campestris pv. campestris: a toolbox for sequential plant N-glycan processing. The plant pathogen Xanthomonas campestris pv. campestris exploits N-acetylglucosamine during infection. J Biol Chem. 2015 Mar 6;290(10):6022-36. doi: 10.1074/jbc.M114.624593. Epub 2015 Jan 13. mBio. 2014 Sep 9;5(5):e01527-14. doi: 10.1128/mBio.01527-14.
2015 Mar 6,2014 Sep 9 degradation 9 6 GH29, GH18, GH20, GH2, GH3, GH125, GH92, GH35
PUL0212 qRT-PCR galactooligosaccharide Bifidobacterium adolescentis 25483279
Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6.
2015 degradation 8 1 GH2
PUL0213 qRT-PCR galactooligosaccharide Bifidobacterium adolescentis 25483279
Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6.
2015 degradation 4 1 GH2
PUL0214 qRT-PCR galactooligosaccharide Bifidobacterium adolescentis 25483279
Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6.
2015 degradation 9 2 GH42, GH35
PUL0215 qPCR, enzyme activity assay xyloglucan Cellvibrio japonicus 25171165
A complex gene locus enables xyloglucan utilization in the model saprophyte Cellvibrio japonicus. Mol Microbiol. 2014 Oct;94(2):418-33. doi: 10.1111/mmi.12776. Epub 2014 Sep 17.
2014 Oct degradation 4 3 GH31, GH35, GH95
PUL0216 Western Blot, enzyme activity assay, RT-PCR, microarray alginate Sphingomonas sp. 24816607
Alginate-dependent gene expression mechanism in Sphingomonas sp. strain A1. J Bacteriol. 2014 Jul;196(14):2691-700. doi: 10.1128/JB.01666-14. Epub 2014 May 9.
2014 Jul degradation 10 1 PL7, PL5, PL15_1
PUL0217 RNA-Seq galactomannan, glucomannan, glucose, mannose Caldanaerobius polysaccharolyticus 25342756
Structural and biochemical basis for mannan utilization by Caldanaerobius polysaccharolyticus strain ATCC BAA-17. J Biol Chem. 2014 Dec 12;289(50):34965-77. doi: 10.1074/jbc.M114.579904. Epub 2014 Oct 23.
2014 Dec 12 degradation 7 2 GH130, GH5_36
PUL0218 enzyme activity assay arabinose, arabinan termite gut metagenome 25304507
Investigating the function of an arabinan utilization locus isolated from a termite gut community. Appl Environ Microbiol. 2015 Jan;81(1):31-9. doi: 10.1128/AEM.02257-14. Epub 2014 Oct 10.
2015 Jan degradation 24 5 GH51, GH97, GH146, GH43_4, GH43, GH43_4, GH51, GH43_29
PUL0219 sugar utilization assay, enzyme activity assay fructooligosaccharide, fructan Lactobacillus paracasei 17644636
Functional analysis of the fructooligosaccharide utilization operon in Lactobacillus paracasei 1195. Appl Environ Microbiol. 2007 Sep;73(18):5716-24. doi: 10.1128/AEM.00805-07. Epub 2007 Jul 20.
2007 Sep degradation 7 1 GH32
PUL0220 mass spectrometry, target decoy database analysis laminarin Polaribacter sp. Hel1_33_49 25478683
Niches of two polysaccharide-degrading Polaribacter isolates from the North Sea during a spring diatom bloom. ISME J. 2015 Jun;9(6):1410-22. doi: 10.1038/ismej.2014.225. Epub 2014 Dec 5.
2015 Jun degradation 11 5 GH30, GH30_1, GH17, GH3, GH149, GH16
PUL0221 fosmid library screen cellulose uncultured bacterium Contig1529 24223817
Metagenomic insights into the carbohydrate-active enzymes carried by the microorganisms adhering to solid digesta in the rumen of cows. PLoS One. 2013 Nov 5;8(11):e78507. doi: 10.1371/journal.pone.0078507. eCollection 2013.
2013 degradation 10 5 GH35, GH105, GH3, GH5_4
PUL0222 fosmid library screen cellulose uncultured bacterium Contig196 24223817
Metagenomic insights into the carbohydrate-active enzymes carried by the microorganisms adhering to solid digesta in the rumen of cows. PLoS One. 2013 Nov 5;8(11):e78507. doi: 10.1371/journal.pone.0078507. eCollection 2013.
2013 degradation 7 3 GH5, GH5_7, GH5_4, GH26
PUL0223 enzyme specificity assay, enzyme activity assay N-glycan Bacteroides thetaiotaomicron 23943617
Discovery of beta-1,4-D-mannosyl-N-acetyl-D-glucosamine phosphorylase involved in the metabolism of N-glycans. J Biol Chem. 2013 Sep 20;288(38):27366-27374. doi: 10.1074/jbc.M113.469080. Epub 2013 Aug 13.
2013 Sep 20 degradation 9 4 GH92, GH130, GH163
PUL0224 RT-PCR, qRT-PCR cellulose Ruminiclostridium cellulolyticum 23418511
A two-component system (XydS/R) controls the expression of genes encoding CBM6-containing proteins in response to straw in Clostridium cellulolyticum. PLoS One. 2013;8(2):e56063. doi: 10.1371/journal.pone.0056063. Epub 2013 Feb 13.
2013 degradation 16 14 GH43_16, GH43, CBM6, GH10, CBM6, GH43, GH43_29, CBM6, CBM6, CE1, GH43_10, CBM6, GH62, CBM6, GH43, GH43_29, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6, GH62, CBM6, CE6, CBM32, GH95, CBM6, GH30_8, CBM6
PUL0225 RT-PCR porphyran Bacteroides plebeius 23150581
Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes. Proc Natl Acad Sci U S A. 2012 Nov 27;109(48):19786-91. doi: 10.1073/pnas.1211002109. Epub 2012 Nov 12.
2012 Nov 27 degradation 36 12 GH16, GH117, GH2, GH2, GH50, GH154, GH105, GH16, GH86, GH86, GH29, GH16, GH2
PUL0226 Western Blot xanthan Xanthomonas campestris 23089617
Xanthan chain length is modulated by increasing the availability of the polysaccharide copolymerase protein GumC and the outer membrane polysaccharide export protein GumB. Glycobiology. 2013 Feb;23(2):259-72. doi: 10.1093/glycob/cws146. Epub 2012 Oct 22.
2013 Feb biosynthesis 13 4 GT4, GT94, GT70, GT26
PUL0227 enzyme activity assay, substrate binding assay xylan Caldanaerobius polysaccharolyticus 22918832
Biochemical and structural insights into xylan utilization by the thermophilic bacterium Caldanaerobius polysaccharolyticus. J Biol Chem. 2012 Oct 12;287(42):34946-34960. doi: 10.1074/jbc.M112.391532. Epub 2012 Aug 22.
2012 Oct 12 degradation 12 1 GH67, GH3
PUL0228 qRT-PCR, enzyme activity assay, high performance anion exchange chromatography arabinan Bacteroides thetaiotaomicron 22686399, 21339299
Prioritization of a plant polysaccharide over a mucus carbohydrate is enforced by a Bacteroides hybrid two-component system. The structure and function of an arabinan-specific alpha-1,2-arabinofuranosidase identified from screening the activities of bacterial GH43 glycoside hydrolases. Mol Microbiol. 2012 Aug;85(3):478-91. doi: 10.1111/j.1365-2958.2012.08123.x. Epub 2012 Jul 5. J Biol Chem. 2011 Apr 29;286(17):15483-95. doi: 10.1074/jbc.M110.215962. Epub 2011 Feb 21.
2012 Aug,2011 Apr 29 degradation 10 4 GH43, GH43_4, GH43_4, GH51, GH43_29
PUL0229 RT-PCR aldouronate Paenibacillus sp. JDR-2 17921311
Structure, function, and regulation of the aldouronate utilization gene cluster from Paenibacillus sp. strain JDR-2. J Bacteriol. 2007 Dec;189(24):8863-70. doi: 10.1128/JB.01141-07. Epub 2007 Oct 5.
2007 Dec degradation 8 3 GH67, CBM22, GH10, GH43_12, GH43
PUL0230 RT-PCR, enzyme activity assay, clone, enzyme kinetic analysis, thin layer chromatography, crystallization maltooligosaccharide Lactobacillus acidophilus 22685275, 32444471
Enzymology and structure of the GH13_31 glucan 1,6-alpha-glucosidase that confers isomaltooligosaccharide utilization in the probiotic Lactobacillus acidophilus NCFM. An 1,4-alpha-Glucosyltransferase Defines a New Maltodextrin Catabolism Scheme in Lactobacillus acidophilus. J Bacteriol. 2012 Aug;194(16):4249-59. doi: 10.1128/JB.00622-12. Epub 2012 Jun 8. Appl Environ Microbiol. 2020 Jul 20;86(15). pii: AEM.00661-20. doi: 10.1128/AEM.00661-20. Print 2020 Jul 20.
2012 Aug,2020 Jul 20 degradation 12 4 GH65, CBM34, GH13, GH13_20
PUL0231 enzyme activity assay, cosmid library screening beta-glucoside Pectobacterium carotovorum subsp. carotovorum 22502871
Cloning and biochemical analysis of beta-glucoside utilization (bgl) operon without phosphotransferase system in Pectobacterium carotovorum subsp. carotovorum LY34. Microbiol Res. 2012 Sep 6;167(8):461-9. doi: 10.1016/j.micres.2012.03.004. Epub 2012 Apr 12.
2012 Sep 6 degradation 2 1 GH1
PUL0232 microarray, electrophoretic mobility shift assay raffinose Bifidobacterium breve 24705323
Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14.
2014 Jun degradation 6 1 GH36
PUL0233 microarray, electrophoretic mobility shift assay melezitose Bifidobacterium breve 24705323
Transcription of two adjacent carbohydrate utilization gene clusters in Bifidobacterium breve UCC2003 is controlled by LacI- and repressor open reading frame kinase (ROK)-type regulators. Appl Environ Microbiol. 2014 Jun;80(12):3604-14. doi: 10.1128/AEM.00130-14.
2014 Jun degradation 5 2 GH36
PUL0234 proteome fractionation, mass spectrometry, target decoy database analysis laminarin Gramella forsetii 24522261
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13.
2014 Jul degradation 7 3 GH16, GH3, GH16
PUL0235 proteome fractionation, mass spectrometry, target decoy database analysis alginate Gramella forsetii 24522261
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13.
2014 Jul degradation 20 7 PL7, PL7_5, PL6_1, PL6, PL7, PL7_5, PL17, PL17_2, PL7, PL7
PUL0236 proteome fractionation, mass spectrometry, target decoy database analysis alpha-glucan Gramella forsetii 24522261
Functional characterization of polysaccharide utilization loci in the marine Bacteroidetes 'Gramella forsetii' KT0803. ISME J. 2014 Jul;8(7):1492-502. doi: 10.1038/ismej.2014.4. Epub 2014 Feb 13.
2014 Jul degradation 13 4 GH13, GH13, GH13_36, GH65, GH13_7
PUL0237 gene deletion mutant and growth assay exopolysaccharide Pseudomonas alkylphenolica 24493568
An alginate-like exopolysaccharide biosynthesis gene cluster involved in biofilm aerial structure formation by Pseudomonas alkylphenolia. Appl Microbiol Biotechnol. 2014 May;98(9):4137-48. doi: 10.1007/s00253-014-5529-6. Epub 2014 Feb 4.
2014 May biosynthesis 12 2 PL5
PUL0238 Northern Blot glucomannan Bacillus subtilis 18177310
Glucomannan utilization operon of Bacillus subtilis. FEMS Microbiol Lett. 2008 Feb;279(1):103-9. doi: 10.1111/j.1574-6968.2007.01018.x.
2008 Feb degradation 8 1 GH26
PUL0239 fosmid library screen, sequence homology analysis cellulose Prevotella sp. Sc00026 24448980
Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22.
2014 Mar degradation 18 10 GH26, GH5_4, GH5_7, GH130, GH26, CE7, GH36, GH3
PUL0240 fosmid library screen, sequence homology analysis cellulose Prevotella sp. Sc00028 24448980
Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22.
2014 Mar degradation 11 5 GH31, GH9, GH26
PUL0241 fosmid library screen, sequence homology analysis cellulose Prevotella sp. Sc00033 24448980
Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22.
2014 Mar degradation 7 3 GH5, GH5_4, GH36
PUL0242 fosmid library screen, sequence homology analysis cellulose Prevotella sp. Sc00044 24448980
Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22.
2014 Mar degradation 9 3 GH31, CBM72, GH5_4, GH26
PUL0243 fosmid library screen, sequence homology analysis cellulose Prevotella sp. Sc00066 24448980
Analysis of the bovine rumen microbiome reveals a diversity of Sus-like polysaccharide utilization loci from the bacterial phylum Bacteroidetes. J Ind Microbiol Biotechnol. 2014 Mar;41(3):601-6. doi: 10.1007/s10295-013-1395-y. Epub 2014 Jan 22.
2014 Mar degradation 12 4 GH5_38, GH94, GH36
PUL0244 gene deletion mutant and growth assay, complementation study, carbohydrate binding assay sialic acid Tannerella forsythia 24351045
Structural and functional characterization of NanU, a novel high-affinity sialic acid-inducible binding protein of oral and gut-dwelling Bacteroidetes species. Biochem J. 2014 Mar 15;458(3):499-511. doi: 10.1042/BJ20131415.
2014 Mar 15 degradation 9 2 GH20, GH33
PUL0245 enzyme activity assay, gene deletion mutant and growth assay, Western Blot fucose Streptococcus pneumoniae 24333485
Structural and functional analysis of fucose-processing enzymes from Streptococcus pneumoniae. J Mol Biol. 2014 Apr 3;426(7):1469-82. doi: 10.1016/j.jmb.2013.12.006. Epub 2013 Dec 12.
2014 Apr 3 degradation 11 2 GH98, CBM47, GH95
PUL0246 enzyme activity assay, gene deletion mutant and growth assay, Western Blot fucose Streptococcus pneumoniae 24333485
Structural and functional analysis of fucose-processing enzymes from Streptococcus pneumoniae. J Mol Biol. 2014 Apr 3;426(7):1469-82. doi: 10.1016/j.jmb.2013.12.006. Epub 2013 Dec 12.
2014 Apr 3 degradation 11 4 GH98, CBM51, GH36, GH36, GH29
PUL0247 primer extension analysis, gene deletion mutant and growth assay capsule polysaccharide Vibrio vulnificus 24102883, 16484211
Role of capsular polysaccharide (CPS) in biofilm formation and regulation of CPS production by quorum-sensing in Vibrio vulnificus. Genetic variation in the Vibrio vulnificus group 1 capsular polysaccharide operon. Mol Microbiol. 2013 Nov;90(4):841-57. doi: 10.1111/mmi.12401. Epub 2013 Oct 10. J Bacteriol. 2006 Mar;188(5):1987-98. doi: 10.1128/JB.188.5.1987-1998.2006.
2013 Nov,2006 Mar degradation 18 4 GT4, GT4
PUL0248 sequence homology analysis capsule polysaccharide Vibrio vulnificus 24102883
Role of capsular polysaccharide (CPS) in biofilm formation and regulation of CPS production by quorum-sensing in Vibrio vulnificus. Mol Microbiol. 2013 Nov;90(4):841-57. doi: 10.1111/mmi.12401. Epub 2013 Oct 10.
2013 Nov degradation 19 1 PL12_3, PL0
PUL0249 microarray rhamnogalacturonan Bacillus subtilis 17449691
Plant cell wall degradation by saprophytic Bacillus subtilis strains: gene clusters responsible for rhamnogalacturonan depolymerization. Appl Environ Microbiol. 2007 Jun;73(12):3803-13. doi: 10.1128/AEM.00147-07. Epub 2007 Apr 20.
2007 Jun degradation 12 6 GH105, CE12, PL11_1, CE12, PL11, PL11_1, PL11, CE12, GH42
PUL0250 sequence homology analysis capsule polysaccharide Vibrio vulnificus 24102883
Role of capsular polysaccharide (CPS) in biofilm formation and regulation of CPS production by quorum-sensing in Vibrio vulnificus. Mol Microbiol. 2013 Nov;90(4):841-57. doi: 10.1111/mmi.12401. Epub 2013 Oct 10.
2013 Nov degradation 30 1 GT4, GT4, PL12, PL0, GT4
PUL0251 gene chips host glycan Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 7 1 CBM32
PUL0252 gene chips mucin, O-glycan Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 6 2 CBM32, GH29
PUL0253 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 32 13 GT2, GT2, GT101, GT0, GT2, GT2, GT4, GT4, GH27
PUL0254 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 28 2 GT4, GT4
PUL0255 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 16 4 GT2
PUL0256 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 19 2 GT4, GT4, GT94
PUL0257 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 15 5 GT4, GT2, GT4, GT2
PUL0258 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 10 4 GT2, GT2, GT2, GT25
PUL0259 comparative genomics exopolysaccharide Nitrosospira multiformis 18390676
Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Appl Environ Microbiol. 2008 Jun;74(11):3559-72. doi: 10.1128/AEM.02722-07. Epub 2008 Apr 4.
2008 Jun biosynthesis 24 2 GT4, PL15, GT4
PUL0260 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 14 1 GT4
PUL0261 gene chips capsule polysaccharide Bacteroides thetaiotaomicron 23996813
Regulated expression of polysaccharide utilization and capsular biosynthesis loci in biofilm and planktonic Bacteroides thetaiotaomicron during growth in chemostats. Biotechnol Bioeng. 2014 Jan;111(1):165-73. doi: 10.1002/bit.24994. Epub 2013 Jul 30.
2014 Jan degradation 17 10 GT4, GT0, GT4, GT4, GT2, GT14, GT14, GT32, GT8, GT2, GT2
PUL0262 RNA-Seq xylan, arabinoxylan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 12 6 GH10, CBM4, GH10, GH5_21, GH5, CE1, CE0, CE6, GH95, GH8
PUL0263 RNA-Seq xylan, arabinoxylan Bacteroides cellulosilyticus 23976882, 30674645
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. Wood-Derived Dietary Fibers Promote Beneficial Human Gut Microbiota. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. mSphere. 2019 Jan 23;4(1). pii: 4/1/e00554-18. doi: 10.1128/mSphere.00554-18.
2013,2019 Jan 23 degradation 5 1 GH10, CBM4, CBM22
PUL0264 RNA-Seq carrageenan Pseudoalteromonas distincta 31886414
Insights into the kappa/iota-carrageenan metabolism pathway of some marine Pseudoalteromonas species. Commun Biol. 2019 Dec 19;2:474. doi: 10.1038/s42003-019-0721-y. eCollection 2019.
2019 degradation 29 5 GH16, GH16
PUL0265 enzyme activity assay, gene deletion mutant and growth assay maltose, maltotriose Staphylococcus xylosus 7730272
Characterization of a genetic locus essential for maltose-maltotriose utilization in Staphylococcus xylosus. J Bacteriol. 1995 May;177(9):2408-15. doi: 10.1128/jb.177.9.2408-2415.1995.
1995 May degradation 2 1 GH13_31, GH13
PUL0266 enzyme activity assay lactose Halorubrum lacusprofundi 23320757
Cloning, overexpression, purification, and characterization of a polyextremophilic beta-galactosidase from the Antarctic haloarchaeon Halorubrum lacusprofundi. BMC Biotechnol. 2013 Jan 16;13:3. doi: 10.1186/1472-6750-13-3.
2013 Jan 16 degradation 15 2 GH42, GH36
PUL0267 RT-qPCR glycogen Lactobacillus acidophilus 23879596
A functional glycogen biosynthesis pathway in Lactobacillus acidophilus: expression and analysis of the glg operon. Mol Microbiol. 2013 Sep;89(6):1187-200. doi: 10.1111/mmi.12338. Epub 2013 Aug 16.
2013 Sep biosynthesis 10 4 GH13_9, CBM48, GH13, GT5, GT35, GH13_39, CBM34, GH13
PUL0268 Northern Blot, promoter assay starch Geobacillus kaustophilus 23793634
Polysaccharide-degrading thermophiles generated by heterologous gene expression in Geobacillus kaustophilus HTA426. Appl Environ Microbiol. 2013 Sep;79(17):5151-8. doi: 10.1128/AEM.01506-13. Epub 2013 Jun 21.
2013 Sep degradation 5 1 GH13_1, GH13
PUL0269 RT-PCR chitin Haloferax mediterranei 23674154
Characterization of genes for chitin catabolism in Haloferax mediterranei. Appl Microbiol Biotechnol. 2014 Feb;98(3):1185-94. doi: 10.1007/s00253-013-4969-8. Epub 2013 May 15.
2014 Feb degradation 16 4 GH3, CBM5, CBM5, GH18, CBM5, GH18
PUL0270 comparative genomics exopolysaccharide, lipopolysaccharide Nitrosospira multiformis 18390676
Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Appl Environ Microbiol. 2008 Jun;74(11):3559-72. doi: 10.1128/AEM.02722-07. Epub 2008 Apr 4.
2008 Jun biosynthesis 15 3 GT4, CE0, CE4
PUL0271 RT-qPCR gentiobiose Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 4 1 GH30_1, GH42
PUL0272 RT-qPCR beta-galactooligosaccharide Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 3 1 GH2
PUL0273 RT-qPCR beta-galactooligosaccharide Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 5 1 GH42
PUL0274 RT-qPCR xylobiose, xylooligosaccharide Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 12 4 GH43, GH43_12, GH43_11, GH43, GH43_10
PUL0275 RT-qPCR maltotriose Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 8 1 GH77
PUL0276 RT-qPCR isomaltose, panose, raffinose, stachyose, melibiose Bifidobacterium animalis subsp. lactis 23663691
Transcriptional analysis of oligosaccharide utilization by Bifidobacterium lactis Bl-04. BMC Genomics. 2013 May 10;14:312. doi: 10.1186/1471-2164-14-312.
2013 May 10 degradation 9 2 GH36, GH36
PUL0277 gene deletion mutant and growth assay, qRT-PCR fructooligosaccharide Streptococcus pneumoniae 23264576
The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21.
2013 Mar degradation 5 1 GH32
PUL0278 gene deletion mutant and growth assay, qRT-PCR fructooligosaccharide Streptococcus pneumoniae 23264576
The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21.
2013 Mar degradation 6 1 GH32
PUL0279 gene deletion mutant and growth assay, qRT-PCR fructooligosaccharide Streptococcus pneumoniae 23264576
The ABC transporter encoded at the pneumococcal fructooligosaccharide utilization locus determines the ability to utilize long- and short-chain fructooligosaccharides. J Bacteriol. 2013 Mar;195(5):1031-41. doi: 10.1128/JB.01560-12. Epub 2012 Dec 21.
2013 Mar degradation 6 1 GH32
PUL0280 microarray, qRT-PCR capsule polysaccharide Streptococcus suis 23226442
HP0197 contributes to CPS synthesis and the virulence of Streptococcus suis via CcpA. PLoS One. 2012;7(11):e50987. doi: 10.1371/journal.pone.0050987. Epub 2012 Nov 30.
2012 biosynthesis 15 5 GT4, GT4, GT2, GT2, GT2
PUL0281 comparative genomics exopolysaccharide, lipopolysaccharide, capsule polysaccharide Nitrosospira multiformis 18390676
Complete genome sequence of Nitrosospira multiformis, an ammonia-oxidizing bacterium from the soil environment. Appl Environ Microbiol. 2008 Jun;74(11):3559-72. doi: 10.1128/AEM.02722-07. Epub 2008 Apr 4.
2008 Jun biosynthesis 28 3 GT2, GT4, GT4
PUL0282 enzyme activity assay galactan Geobacillus stearothermophilus 23216604
Functional characterization of the galactan utilization system of Geobacillus stearothermophilus. FEBS J. 2013 Feb;280(3):950-64. doi: 10.1111/febs.12089. Epub 2013 Jan 7.
2013 Feb degradation 7 2 GH42
PUL0283 microarray, high performance anion exchange chromatography, liquid chromatography and mass spectrometry galactooligosaccharide Bifidobacterium breve 23199239
Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2.
2013 Jan degradation 6 1 GH42, GH53, CBM61
PUL0284 microarray, high performance anion exchange chromatography, liquid chromatography and mass spectrometry galactooligosaccharide Bifidobacterium breve 23199239
Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2.
2013 Jan degradation 3 1 GH2
PUL0285 microarray, high performance anion exchange chromatography, liquid chromatography and mass spectrometry galactooligosaccharide Bifidobacterium breve 23199239
Transcriptional and functional characterization of genetic elements involved in galacto-oligosaccharide utilization by Bifidobacterium breve UCC2003. Microb Biotechnol. 2013 Jan;6(1):67-79. doi: 10.1111/1751-7915.12011. Epub 2012 Dec 2.
2013 Jan degradation 6 1 GH42
PUL0286 NMR, mass spectrometry, sugar utilization assay O-antigen Providencia alcalifaciens 23163869
Structural, serological, and genetic characterization of the O-antigen of Providencia alcalifaciens O40. FEMS Immunol Med Microbiol. 2012 Dec;66(3):382-92. doi: 10.1111/1574-695X.12002.
2012 Dec biosynthesis 16 4 GT2, GT4, GT2
PUL0287 RT-PCR unknown polysaccharide Streptococcus pneumoniae 23082033
Characterization of the ROK-family transcriptional regulator RokA of Streptococcus pneumoniae D39. Microbiology (Reading). 2012 Dec;158(Pt 12):2917-2926. doi: 10.1099/mic.0.062919-0. Epub 2012 Oct 18.
2012 Dec degradation 6 1 GH1
PUL0288 acid hydrolysis, NMR, mass spectrometry, sugar utilization assay capsule polysaccharide, heparosan Escherichia coli 22975275
Production of intracellular heparosan and derived oligosaccharides by lyase expression in metabolically engineered E. coli K-12. Carbohydr Res. 2012 Oct 1;360:19-24. doi: 10.1016/j.carres.2012.07.013. Epub 2012 Jul 27.
2012 Oct 1 biosynthesis 5 1 GT2
PUL0289 enzyme activity assay xylan Flavobacterium johnsoniae 29588659
A novel acetyl xylan esterase enabling complete deacetylation of substituted xylans. Biotechnol Biofuels. 2018 Mar 22;11:74. doi: 10.1186/s13068-018-1074-3. eCollection 2018.
2018 degradation 12 7 GH97, GH3, CBM22, GH43_10, GH43, GH146, GH115, CE0, CE6, CE1, GH43_12
PUL0290 NMR, mass spectrometry, sugar utilization assay O-antigen Yersinia intermedia 29524727
Full structure and insight into the gene cluster of the O-specific polysaccharide of Yersinia intermedia H9-36/83 (O:17). Carbohydr Res. 2018 May 2;460:51-56. doi: 10.1016/j.carres.2018.02.014. Epub 2018 Feb 28.
2018 May 2 degradation 12 4 GT4, GT4
PUL0291 electrophoretic mobility shift assay, qPCR lactose Escherichia coli 29453395
The genes of the sulphoquinovose catabolism in Escherichia coli are also associated with a previously unknown pathway of lactose degradation. Sci Rep. 2018 Feb 16;8(1):3177. doi: 10.1038/s41598-018-21534-3.
2018 Feb 16 degradation 10 1 GH31
PUL0292 enzyme activity assay chitin Collimonas fungivorans 18671744
Identification and characterization of genes underlying chitinolysis in Collimonas fungivorans Ter331. FEMS Microbiol Ecol. 2008 Oct;66(1):123-35. doi: 10.1111/j.1574-6941.2008.00547.x. Epub 2008 Jul 30.
2008 Oct degradation 14 3 GH0, GH16, GH3
PUL0293 RT-qPCR, gene deletion mutant and growth assay mannan Bacillus sp. N16-5 29360976
Transcriptional regulation of the mannan utilization genes in the alkaliphilic Bacillus sp. N16-5. FEMS Microbiol Lett. 2018 Feb 1;365(4). pii: 4816728. doi: 10.1093/femsle/fnx280.
2018 Feb 1 degradation 12 7 GH130, GH130, GH27, CE7
PUL0294 gene trait matching exercise xylooligosaccharide Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 12 2 GH120, GH43, GH43_12, GH43_11, GH43
PUL0295 gene trait matching exercise arabinan Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 9 5 GH43_22, GH43_34, GH43, GH43_22, GH43_26, GH43, GH43_27, GH43, GH43_22, GH43, GH43_22
PUL0296 gene trait matching exercise arabinan Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 4 1 GH43, GH43_22
PUL0297 gene trait matching exercise galactan Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 9 2 GH42, GH53, CBM61
PUL0298 gene trait matching exercise galactan Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 10 2 GH42
PUL0299 gene trait matching exercise fucosyllactose Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 13 2 GH29, GH95
PUL0300 gene trait matching exercise arabinoxylan Bifidobacterium longum 29310579
Gene-trait matching across the Bifidobacterium longum pan-genome reveals considerable diversity in carbohydrate catabolism among human infant strains. BMC Genomics. 2018 Jan 8;19(1):33. doi: 10.1186/s12864-017-4388-9.
2018 Jan 8 degradation 14 5 GH43_26, GH43, GH43_27, GH43, GH43_4, GH43_4, GH51
PUL0301 sugar utilization assay, NMR O-antigen Escherichia coli 29309918
Structure elucidation of the O-specific polysaccharide by NMR spectroscopy and selective cleavage and genetic characterization of the O-antigen of Escherichia albertii O5. Carbohydr Res. 2018 Mar 2;457:25-31. doi: 10.1016/j.carres.2017.12.010. Epub 2018 Jan 3.
2018 Mar 2 biosynthesis 10 3 GT32, GT2, GT2
PUL0302 RT-qPCR, isothermal titration calorimetry, enzyme activity assay, gene deletion mutant and growth assay arabinan Bacteroides thetaiotaomicron 29255254
Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18.
2018 Feb degradation 22 6 GH51, GH146, GH43_4, GH43, GH43_4, GH51, GH43_29
PUL0303 enzyme activity assay chitin Collimonas fungivorans 18671744
Identification and characterization of genes underlying chitinolysis in Collimonas fungivorans Ter331. FEMS Microbiol Ecol. 2008 Oct;66(1):123-35. doi: 10.1111/j.1574-6941.2008.00547.x. Epub 2008 Jul 30.
2008 Oct degradation 9 1 CE9
PUL0304 RT-qPCR, isothermal titration calorimetry, enzyme activity assay, gene deletion mutant and growth assay galactan Bacteroides thetaiotaomicron 29255254
Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18.
2018 Feb degradation 7 2 GH2, GH53
PUL0305 RT-qPCR, isothermal titration calorimetry, enzyme activity assay, gene deletion mutant and growth assay homogalacturonan Bacteroides thetaiotaomicron 29255254
Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18.
2018 Feb degradation 17 7 GH105, CE8, CE4, CE8, CE12, PL1_2, PL1, CE8, PL1_2, PL1, CE8, PL1_2, GH28
PUL0306 RT-qPCR, isothermal titration calorimetry, enzyme activity assay, gene deletion mutant and growth assay galactan Bacteroides ovatus 29255254
Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18.
2018 Feb degradation 7 3 GH2, GH53, GH147
PUL0307 enzyme activity assay chitin Serratia marcescens subsp. marcescens 29229757, 8757722
Structure and activity of ChiX: a peptidoglycan hydrolase required for chitinase secretion by Serratia marcescens. Comparative studies of chitinases A and B from Serratia marcescens. Biochem J. 2018 Jan 23;475(2):415-428. doi: 10.1042/BCJ20170633. Microbiology (Reading). 1996 Jul;142 ( Pt 7):1581-9. doi: 10.1099/13500872-142-7-1581.
2018 Jan 23,1996 Jul degradation 6 2 CBM5, GH18, AA10
PUL0308 microarray, enzyme activity assay, high performance anion exchange chromatography, mass spectrometry, RNA-seq beta-glucan Bacteroides ovatus 29020628, 22205877, 32801182
Molecular Mechanism by which Prominent Human Gut Bacteroidetes Utilize Mixed-Linkage Beta-Glucans, Major Health-Promoting Cereal Polysaccharides. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Sharing a beta-Glucan Meal: Transcriptomic Eavesdropping on a Bacteroides ovatus-Subdoligranulum variabile-Hungatella hathewayi Consortium. Cell Rep. 2017 Oct 10;21(2):417-430. doi: 10.1016/j.celrep.2017.09.049. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Appl Environ Microbiol. 2020 Oct 1;86(20). pii: AEM.01651-20. doi: 10.1128/AEM.01651-20. Print 2020 Oct 1.
2017 Oct 10,2011 Dec,2020 Oct 1 degradation 5 3 GH16, GH3
PUL0309 enzyme activity assay, substrate binding assay, isothermal titration calorimetry arabinan Caldanaerobius polysaccharolyticus 28710263
Enzymatic Mechanism for Arabinan Degradation and Transport in the Thermophilic Bacterium Caldanaerobius polysaccharolyticus. Appl Environ Microbiol. 2017 Aug 31;83(18). pii: AEM.00794-17. doi: 10.1128/AEM.00794-17. Print 2017 Sep 15.
2017 Sep 15 degradation 12 6 GH43_4, GH43, GH127, GH51, GH27, GH51, GH146
PUL0310 microarray laminarin Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 6 1 CBM4
PUL0311 enzyme activity assay cellulose Escherichia coli 31455320
Identification and characterization of an Endo-glucanase secreted from cellulolytic Escherichia coli ZH-4. BMC Biotechnol. 2019 Aug 27;19(1):63. doi: 10.1186/s12896-019-0556-0.
2019 Aug 27 degradation 4 2 GT2, GH8
PUL0312 RT-PCR sucrose Gluconacetobacter diazotrophicus 19139238
Transcriptional regulation and signal-peptide-dependent secretion of exolevanase (LsdB) in the endophyte Gluconacetobacter diazotrophicus. Appl Environ Microbiol. 2009 Mar;75(6):1782-5. doi: 10.1128/AEM.01887-08. Epub 2009 Jan 9.
2009 Mar degradation 2 2 GH68, GH32
PUL0313 microarray, Northern Blot, RT-qPCR, electrophoretic mobility shift assay, clone and expression, gene deletion mutant and growth assay alginate Zobellia galactanivorans 28983288, 32585009
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Regulation of alginate catabolism involves a GntR family repressor in the marine flavobacterium Zobellia galactanivorans DsijT. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017. Nucleic Acids Res. 2020 Aug 20;48(14):7786-7800. doi: 10.1093/nar/gkaa533.
2017,2020 Aug 20 degradation 3 3 PL6, PL6_1, PL7_5, PL7, PL6, PL6_1
PUL0314 microarray laminarin, alginate Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 5 2 GT2, GT4
PUL0315 microarray agar, porphyran Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 4 2 GH16
PUL0316 microarray agar, porphyran Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 15 2 GH2, GH117
PUL0317 microarray agar, porphyran Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 3 2 GH16
PUL0318 microarray carrageenan Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 3 1 CBM16, GH16
PUL0319 microarray carrageenan Zobellia galactanivorans 28983288
Gene Expression Analysis of Zobellia galactanivorans during the Degradation of Algal Polysaccharides Reveals both Substrate-Specific and Shared Transcriptome-Wide Responses. Front Microbiol. 2017 Sep 21;8:1808. doi: 10.3389/fmicb.2017.01808. eCollection 2017.
2017 degradation 4 1 GH5_42, GH5
PUL0320 liquid chromatography and mass spectrometry, mass spectrometry, target decoy database analysis glucan Caldicellulosiruptor bescii 29475869, 29588665
Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. The diversity and specificity of the extracellular proteome in the cellulolytic bacterium Caldicellulosiruptor bescii is driven by the nature of the cellulosic growth substrate. Appl Environ Microbiol. 2018 Apr 16;84(9). pii: AEM.02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1. Biotechnol Biofuels. 2018 Mar 23;11:80. doi: 10.1186/s13068-018-1076-1. eCollection 2018.
2018 May 1,2018 degradation 19 9 CE12, PL11, CBM3, PL3_1, CBM66, PL3, PL9_1, PL9, CBM66, CBM22, GH10, GH48, CBM3, GH44, GH5, CBM3, GH5_8, GH48, GH74, CBM3, GT39, GH5, GH9, CBM3, GH5_8, GH5_1, CBM3, GH5_8, GH9, GH48, CBM3
PUL0321 enzyme activity assay, transposon mutagenesis beta-glucoside Escherichia coli 19233952
Characterization of a beta-glucoside operon (bgc) prevalent in septicemic and uropathogenic Escherichia coli strains. Appl Environ Microbiol. 2009 Apr;75(8):2284-93. doi: 10.1128/AEM.02621-08. Epub 2009 Feb 20.
2009 Apr degradation 6 1 GH1
PUL0322 liquid chromatography and mass spectrometry glucan Caldicellulosiruptor danielii 29475869
Genus-Wide Assessment of Lignocellulose Utilization in the Extremely Thermophilic Genus Caldicellulosiruptor by Genomic, Pangenomic, and Metagenomic Analyses. Appl Environ Microbiol. 2018 Apr 16;84(9). pii: AEM.02694-17. doi: 10.1128/AEM.02694-17. Print 2018 May 1.
2018 May 1 degradation 20 11 CBM3, PL11, CE12, PL3_1, CBM66, PL3, CBM66, PL9, PL9_1, CBM66, PL9, PL9_1, CBM66, PL9, PL9_1, CBM3, GH74, GH48, GT39, CBM3, GH9, GH5, GH5_8, GH5_1, GH10, GH5, CBM22, CBM3, GH48, GH10, GH12, CBM22, CBM3, CBM3, GH5, GH44, GH5_8, CBM3, GH9, GH48
PUL0323 fitness contribution assay, insertion sequencing galactan Bacillus subtilis subsp. subtilis 28617843
Characterization of the regulation of a plant polysaccharide utilization operon and its role in biofilm formation in Bacillus subtilis. PLoS One. 2017 Jun 15;12(6):e0179761. doi: 10.1371/journal.pone.0179761. eCollection 2017.
2017 degradation 6 2 CBM61, GH53, GH42
PUL0324 RT-PCR, enzyme activity assay capsule polysaccharide Serratia marcescens 28536292
Capsule Production and Glucose Metabolism Dictate Fitness during Serratia marcescens Bacteremia. mBio. 2017 May 23;8(3). pii: mBio.00740-17. doi: 10.1128/mBio.00740-17.
2017 May 23 biosynthesis 17 2 GT4, GT4
PUL0325 RT-PCR, enzyme activity assay beta-glucan Bacteroides thetaiotaomicron 28461332
A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: Unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase. J Biol Chem. 2017 Jun 23;292(25):10639-10650. doi: 10.1074/jbc.M117.787606. Epub 2017 May 1.
2017 Jun 23 degradation 6 2 GH30, GH30_3, GH3
PUL0326 gene deletion mutant and growth assay, enzyme activity assay, thin layer chromatography beta-glucan Bacteroides ovatus 28461332
A Bacteroidetes locus dedicated to fungal 1,6-beta-glucan degradation: Unique substrate conformation drives specificity of the key endo-1,6-beta-glucanase. J Biol Chem. 2017 Jun 23;292(25):10639-10650. doi: 10.1074/jbc.M117.787606. Epub 2017 May 1.
2017 Jun 23 degradation 13 2 GH73
PUL0327 microarray, gas chromatography and mass spectrometry, gene deletion mutant and growth assay, complementation study maltodextrin Enterococcus faecalis 28455338, 32680872
Enzymes Required for Maltodextrin Catabolism in Enterococcus faecalis Exhibit Novel Activities. Enterococcus faecalis Maltodextrin Gene Regulation by Combined Action of Maltose Gene Regulator MalR and Pleiotropic Regulator CcpA. Appl Environ Microbiol. 2017 Jun 16;83(13). pii: AEM.00038-17. doi: 10.1128/AEM.00038-17. Print 2017 Jul 1. Appl Environ Microbiol. 2020 Sep 1;86(18). pii: AEM.01147-20. doi: 10.1128/AEM.01147-20. Print 2020 Sep 1.
2017 Jul 1,2020 Sep 1 degradation 6 3 GH13, CBM34, GH13_20
PUL0328 microarray, gas chromatography and mass spectrometry xylan Gramella flava 28261179
Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017.
2017 degradation 10 4 GH127, CBM13, GH43, GH43_26, GH2, GH5, GH5_13
PUL0329 microarray, gas chromatography and mass spectrometry xylan Gramella flava 28261179
Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017.
2017 degradation 25 7 GH43_10, GH43, CBM22, GH43, GH43_12, GH43, GH43_1, GH3, GH67, GH10, GH115, CE15
PUL0330 fosmid library screen, enzyme activity assay, thin layer chromatography pectin Gramella flava 28261179
Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017.
2017 degradation 28 11 CE8, PL9_1, GH28, GH105, GH43_10, GH28, PL9_1, CE12, CE8, CE10, CE12, PL10_1
PUL0331 carbon utilization assay cellobiose Aliivibrio fischeri 18487409
Identification of a cellobiose utilization gene cluster with cryptic beta-galactosidase activity in Vibrio fischeri. Appl Environ Microbiol. 2008 Jul;74(13):4059-69. doi: 10.1128/AEM.00190-08. Epub 2008 May 16.
2008 Jul degradation 6 1 GH1
PUL0332 fosmid library screen, enzyme activity assay, thin layer chromatography carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 19 9 GH5, GH5_2, GH5_7, GH5, CE7, GH2, GH94, GH97, GH127, GH127
PUL0333 fosmid library screen, enzyme activity assay, thin layer chromatography carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 22 3 GH9, GH31, GH9
PUL0334 fosmid library screen, enzyme activity assay, thin layer chromatography carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 23 5 GH9, GH31, GH9, GH9, CE4
PUL0335 fosmid library screen, enzyme activity assay, thin layer chromatography xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 31 4 GH13, GH97, GH3, GH158, GH16
PUL0336 fosmid library screen, enzyme activity assay, thin layer chromatography xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 25 3 GH3, GH158, GH16
PUL0337 fosmid library screen, enzyme activity assay, thin layer chromatography xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 29 3 GH16, GH158, GH3
PUL0338 fosmid library screen, enzyme activity assay, thin layer chromatography xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 34 4 GH16, GH158, GH3, GH97
PUL0339 fosmid library screen, enzyme activity assay, thin layer chromatography xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 24 4 GH97, GH3, GH16, GH20
PUL0340 fosmid library screen, enzyme activity assay, thin layer chromatography carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 37 1 GH5_2, GH5
PUL0341 fosmid library screen, enzyme activity assay, thin layer chromatography carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 43 3 GH32, GH91, GH5, GH5_2
PUL0342 enzyme activity assay, gene deletion mutant and growth assay xylan Prevotella ruminicola 19304844
Biochemical analysis of a beta-D-xylosidase and a bifunctional xylanase-ferulic acid esterase from a xylanolytic gene cluster in Prevotella ruminicola 23. J Bacteriol. 2009 May;191(10):3328-38. doi: 10.1128/JB.01628-08. Epub 2009 Mar 20.
2009 May degradation 5 3 GH10, CE1, CBM22, GH95, GH3
PUL0343 gene deletion mutant and growth assay, enzyme activity assay, Western Blot, isothermal titration calorimetry carboxymethylcellulose, xylan, beta-glucan, lichenan uncultured bacterium 28091525
A fibrolytic potential in the human ileum mucosal microbiota revealed by functional metagenomic. Sci Rep. 2017 Jan 16;7:40248. doi: 10.1038/srep40248.
2017 Jan 16 degradation 39 1 GH5, GH5_2
PUL0344 gene deletion mutant and growth assay, protein structure characterization chitin Flavobacterium johnsoniae 27933102, 32792608
A polysaccharide utilization locus from Flavobacterium johnsoniae enables conversion of recalcitrant chitin. Structural insights of the enzymes from the chitin utilization locus of Flavobacterium johnsoniae. Biotechnol Biofuels. 2016 Nov 28;9:260. doi: 10.1186/s13068-016-0674-z. eCollection 2016. Sci Rep. 2020 Aug 13;10(1):13775. doi: 10.1038/s41598-020-70749-w.
2016,2020 Aug 13 degradation 11 3 GH18, GH20, GH18
PUL0345 qRT-PCR, enzyme activity assay xylan Bacteroides intestinalis 27681607
Bacteroides intestinalis DSM 17393, a member of the human colonic microbiome, upregulates multiple endoxylanases during growth on xylan. Sci Rep. 2016 Sep 29;6:34360. doi: 10.1038/srep34360.
2016 Sep 29 degradation 31 13 CBM4, GH10, GH35, GH43_12, GH43, GH10, GH43_1, GH43, GH67, GH8, CE6, GH95, CE0, CE1, GH5, GH5_21, GH10, CBM0, GH115
PUL0346 gene deletion mutant and growth assay xylooligosaccharide uncultured bacterium 27573446
Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli. Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14.
2016 Nov degradation 15 5 GH43, GH43_29, GH43, GH43_12, GH43, GH43_1, GH10, GH16
PUL0347 gene deletion mutant and growth assay, RT-PCR sorbitol Bifidobacterium breve 24581150
Comparative genomics of the Bifidobacterium breve taxon. BMC Genomics. 2014 Mar 1;15:170. doi: 10.1186/1471-2164-15-170.
2014 Mar 1 degradation 13 1 CBM48, GH13_11
PUL0348 enzyme activity assay sialoglycoconjugate Bacteroides fragilis 22449996
Characterization of a gene cluster for sialoglycoconjugate utilization in Bacteroides fragilis. J Med Invest. 2012;59(1-2):79-94. doi: 10.2152/jmi.59.79.
2012 degradation 13 1 GH33, GH20, GH2, CBM32, GH20, GH20, GH92, GH2, GH2
PUL0349 microarray sucrose Leptotrichia buccalis 22230464
Metabolism of sugars by genetically diverse species of oral Leptotrichia. Mol Oral Microbiol. 2012 Feb;27(1):34-44. doi: 10.1111/j.2041-1014.2011.00627.x. Epub 2011 Oct 4.
2012 Feb degradation 3 8 GH4
PUL0350 microarray capsule polysaccharide Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 biosynthesis 21 3 GT4, GT2, GT4, GT2
PUL0351 enzyme activity assay sucrose Escherichia coli 1435727
Characterization of a chromosomally encoded, non-PTS metabolic pathway for sucrose utilization in Escherichia coli EC3132. Mol Gen Genet. 1992 Oct;235(1):22-32. doi: 10.1007/BF00286177.
1992 Oct degradation 4 1 GH32
PUL0352 microarray arabinan, xylan, levan, pectin, rhamnogalacturonan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 6 1 GH20
PUL0353 microarray, enzyme activity assay, strcutural analysis, clone and expression arabinan, xylan, levan, pectin, rhamnogalacturonan Bacteroides thetaiotaomicron 16968696, 32060313
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. Structural basis of mammalian high-mannose N-glycan processing by human gut Bacteroides. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12. Nat Commun. 2020 Feb 14;11(1):899. doi: 10.1038/s41467-020-14754-7.
2006 Nov 24,2020 Feb 14 degradation 11 3 GH0, GH92, GH92
PUL0354 microarray lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 8 3 GH93, GH0, GH43_31, GH43, GH43_31
PUL0355 microarray lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 8 1 GH30_4, GH30, GH18
PUL0356 microarray lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 9 1 GH18
PUL0357 microarray arabinan, xylan, levan, pectin, rhamnogalacturonan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 3 1 CBM32
PUL0358 microarray lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 4 4 CBM32, GH35, GH43_19, GH43, GH43_9, GH43_19, GH43, GH51
PUL0359 microarray lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 5 3 GH43_10, GH97, GH29
PUL0360 gene deletion mutant and growth assay lactose, host glycan Bacteroides thetaiotaomicron 16968696
Functional genomic and metabolic studies of the adaptations of a prominent adult human gut symbiont, Bacteroides thetaiotaomicron, to the suckling period. J Biol Chem. 2006 Nov 24;281(47):36269-79. doi: 10.1074/jbc.M606509200. Epub 2006 Sep 12.
2006 Nov 24 degradation 6 2 GH2, GH53
PUL0361 enzyme activity assay starch, maltodextrin Thermotoga maritima 10972187
Thermotoga maritima AglA, an extremely thermostable NAD+-, Mn2+-, and thiol-dependent alpha-glucosidase. Extremophiles. 2000 Aug;4(4):189-200. doi: 10.1007/pl00010711.
2000 Aug degradation 6 3 GH13_20, CBM34, GH13, GH4
PUL0362 enzyme activity assay sucrose Xanthomonas campestris pv. campestris 17311090
Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224.
2007 Feb 21 degradation 4 1 GH13_4
PUL0363 enzyme activity assay pectin Xanthomonas campestris pv. campestris 17311090
Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224.
2007 Feb 21 degradation 3 1 CE8, PL10, PL10_1
PUL0364 enzyme activity assay xylan Xanthomonas campestris pv. campestris 17311090
Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224.
2007 Feb 21 degradation 8 4 CBM22, GH10, GH2, GH10, GH43_1
PUL0365 RT-PCR maltodextrin Xanthomonas campestris pv. campestris 17311090
Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria. PLoS One. 2007 Feb 21;2(2):e224. doi: 10.1371/journal.pone.0000224.
2007 Feb 21 degradation 8 4 GH13, GH13_2, GH97
PUL0366 RT-PCR N-acetyl-D-galactosamine, d-galactosamine Escherichia coli 10931310
Pathways for the utilization of N-acetyl-galactosamine and galactosamine in Escherichia coli. Mol Microbiol. 2000 Jul;37(1):125-35. doi: 10.1046/j.1365-2958.2000.01969.x.
2000 Jul degradation 13 1 CE9
PUL0367 mass spectrometry galactooligosaccharide Bifidobacterium longum 18539808
Differential transcriptional response of Bifidobacterium longum to human milk, formula milk, and galactooligosaccharide. Appl Environ Microbiol. 2008 Aug;74(15):4686-94. doi: 10.1128/AEM.00122-08. Epub 2008 Jun 6.
2008 Aug degradation 3 1 GH42
PUL0368 microarray, Western Blot human milk oligosaccharide Bifidobacterium longum subsp. infantis 19033196
The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome. Proc Natl Acad Sci U S A. 2008 Dec 2;105(48):18964-9. doi: 10.1073/pnas.0809584105. Epub 2008 Nov 24.
2008 Dec 2 degradation 30 4 GH2, GH95, GH29, GH33, GH20
PUL0369 RT-PCR unsaturated hyaluronate disaccharide, chondroitin disaccharide Streptococcus agalactiae NEM316 19416976
Substrate specificity of streptococcal unsaturated glucuronyl hydrolases for sulfated glycosaminoglycan. J Biol Chem. 2009 Jul 3;284(27):18059-69. doi: 10.1074/jbc.M109.005660. Epub 2009 May 5.
2009 Jul 3 degradation 11 1 GH88
PUL0370 RT-PCR beta-glucoside Corynebacterium glutamicum 19628558
Identification of a second beta-glucoside phosphoenolpyruvate: carbohydrate phosphotransferase system in Corynebacterium glutamicum R. Microbiology (Reading). 2009 Nov;155(Pt 11):3652-3660. doi: 10.1099/mic.0.029496-0. Epub 2009 Jul 23.
2009 Nov degradation 3 1 GH1
PUL0371 enzyme activity assay cyclomaltodextrin Thermococcus sp. B1001 11489857
Extracellular synthesis, specific recognition, and intracellular degradation of cyclomaltodextrins by the hyperthermophilic archaeon Thermococcus sp. strain B1001. J Bacteriol. 2001 Sep;183(17):5050-7. doi: 10.1128/jb.183.17.5050-5057.2001.
2001 Sep degradation 5 1 CBM34, GH13, GH13_20
PUL0372 enzyme activity assay beta-glucoside Corynebacterium glutamicum 19628558
Identification of a second beta-glucoside phosphoenolpyruvate: carbohydrate phosphotransferase system in Corynebacterium glutamicum R. Microbiology (Reading). 2009 Nov;155(Pt 11):3652-3660. doi: 10.1099/mic.0.029496-0. Epub 2009 Jul 23.
2009 Nov degradation 3 1 GH1
PUL0373 enzyme activity assay sucrose Dickeya dadantii 19734309
Catabolism of raffinose, sucrose, and melibiose in Erwinia chrysanthemi 3937. J Bacteriol. 2009 Nov;191(22):6960-7. doi: 10.1128/JB.00594-09. Epub 2009 Sep 4.
2009 Nov degradation 5 1 GH32
PUL0374 microarray, qPCR melibiose Dickeya dadantii 19734309
Catabolism of raffinose, sucrose, and melibiose in Erwinia chrysanthemi 3937. J Bacteriol. 2009 Nov;191(22):6960-7. doi: 10.1128/JB.00594-09. Epub 2009 Sep 4.
2009 Nov degradation 3 1 GH36
PUL0375 microarray, qPCR alpha-mannan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 19 5 GH97, GH67, GH76, GH92, GH76, GH125
PUL0376 microarray, qPCR mucin, O-glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 9 2 GH16, GH18
PUL0377 microarray, qPCR glycosaminoglycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 27 3 PL8_2, PL8, PL29, GH2, GH88, PL8_2
PUL0378 microarray, qPCR alpha-mannan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 20 5 GH92, CBM32, GH38, GT32, GT32, GH130, GH125, GH76, GH92, GH76
PUL0379 microarray, qPCR alpha-mannan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 10 2 GH92, GH99
PUL0380 microarray, qPCR mucin, O-glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 12 4 GH0, GH92, GH92, GH92
PUL0381 microarray, gene deletion mutant and growth assay chitin Vibrio cholerae 14983042
The Vibrio cholerae chitin utilization program. Proc Natl Acad Sci U S A. 2004 Feb 24;101(8):2524-9. doi: 10.1073/pnas.0308707101.
2004 Feb 24 degradation 6 1 CBM12, CE4, GH4
PUL0382 microarray, qPCR mucin, O-glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 11 1 GH2, GH109
PUL0383 microarray, qPCR mucin, O-glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 5 1 GH89
PUL0384 microarray, qPCR glycosaminoglycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 12 3 PL15_2, PL15, PL12, PL12_2, GH88, PL12_2
PUL0385 ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high performance anion exchange chromatography cellulose Ruminiclostridium cellulolyticum 20013800
Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311.
2010 Feb degradation 12 10 GH48, GH8, GH9, CBM3, CBM4, GH9, CBM30, GH9, CBM3, GH9, CBM3, GH5_17, GH9, PL11_1, PL11, GH5_1
PUL0386 ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high performance anion exchange chromatography hemicellulose Ruminiclostridium cellulolyticum 20013800
Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311.
2010 Feb degradation 11 11 GH43, CBM6, GH43_16, GH10, CBM6, GH43_29, GH43, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43_29, GH43, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6
PUL0387 gene deletion mutant and growth assay, qRT-PCR, GlcNAc phosphorylation assays N-acetylglucosamine Xanthomonas campestris pv. campestris 20081036
Identification and regulation of the N-acetylglucosamine utilization pathway of the plant pathogenic bacterium Xanthomonas campestris pv. campestris. J Bacteriol. 2010 Mar;192(6):1487-97. doi: 10.1128/JB.01418-09. Epub 2010 Jan 15.
2010 Mar degradation 7 1 CE9
PUL0388 sugar utilization assay, NMR O-antigen Salmonella enterica 20501518
Structural and genetic characterization of the closely related O-antigens of Escherichia coli O85 and Salmonella enterica O17. Innate Immun. 2011 Apr;17(2):164-73. doi: 10.1177/1753425910369270. Epub 2010 May 25.
2011 Apr biosynthesis 9 4 GT4, GT4, GT2
PUL0389 sugar utilization assay, NMR O-antigen Escherichia coli 20501518
Structural and genetic characterization of the closely related O-antigens of Escherichia coli O85 and Salmonella enterica O17. Innate Immun. 2011 Apr;17(2):164-73. doi: 10.1177/1753425910369270. Epub 2010 May 25.
2011 Apr biosynthesis 8 4 GT4, GT4, GT2
PUL0390 enzyme activity assay acetylated glucuronoxylan Thermotoga maritima 21255309
Hyperthermostable acetyl xylan esterase. Microb Biotechnol. 2010 Jan;3(1):84-92. doi: 10.1111/j.1751-7915.2009.00150.x. Epub 2009 Sep 18.
2010 Jan degradation 24 5 GH67, GH10, CBM22, CBM9, CBM22, GH10, GH3, CE7
PUL0391 microarray cellulose, xylan, xyloglucan, pectin, mannan Caldicellulosiruptor bescii 21227922
Insights into plant biomass conversion from the genome of the anaerobic thermophilic bacterium Caldicellulosiruptor bescii DSM 6725. Nucleic Acids Res. 2011 Apr;39(8):3240-54. doi: 10.1093/nar/gkq1281. Epub 2011 Jan 11.
2011 Apr degradation 15 10 PL11, CBM35, GH12, CBM3, CBM2, CE12, PL3_1, PL3, CBM66, PL9_1, CBM35, CBM66, PL9, CBM22, GH12, CBM0, CBM3, CBM2, CBM1, GH48, GH10, CBM9, GH44, CBM35, GH12, CBM44, CBM3, CBM2, CBM76, CBM10, GH5, GH5_8, CBM35, GH12, CBM5, CBM3, CBM2, GH74, CBM1, GH48, GT39, CBM3, GH9, GH5_8, CBM3, GH5_1, GH5_8, CBM3, GH48, GH9
PUL0392 RT-PCR, qPCR xylan Bacteroides xylanisolvens 27142817
Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics. 2016 May 4;17:326. doi: 10.1186/s12864-016-2680-8.
2016 May 4 degradation 8 3 GH67, GH13_14
PUL0393 enzyme activity assay, analysis of reaction products galactan Microbulbifer thermotolerans 20686828
Hyper-production and characterization of the iota-carrageenase useful for iota-carrageenan oligosaccharide production from a deep-sea bacterium, Microbulbifer thermotolerans JAMB-A94T, and insight into the unusual catalytic mechanism. Mar Biotechnol (NY). 2011 Jun;13(3):411-22. doi: 10.1007/s10126-010-9312-0. Epub 2010 Aug 5.
2011 Jun degradation 10 1 GH86, CBM6, GH16, CBM6
PUL0394 microarray fructan, inulin Roseburia inulinivorans 20679207
Substrate-driven gene expression in Roseburia inulinivorans: importance of inducible enzymes in the utilization of inulin and starch. Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4672-9. doi: 10.1073/pnas.1000091107. Epub 2010 Aug 2.
2011 Mar 15 degradation 6 1 GH32
PUL0395 isothermal calorimetric titration, electrophoretic mobility shift assay, Northern Blot arabinose, arabinan Geobacillus stearothermophilus 21460081
The L-Arabinan utilization system of Geobacillus stearothermophilus. J Bacteriol. 2011 Jun;193(11):2838-50. doi: 10.1128/JB.00222-11. Epub 2011 Apr 1.
2011 Jun degradation 25 5 GH43, GH43_5, GH43, GH43_4, CBM54, GH51, GH51, GH127
PUL0396 gene deletion mutant and growth assay N-acetylglucosamine Cupriavidus necator 21478317
Effects of homologous phosphoenolpyruvate-carbohydrate phosphotransferase system proteins on carbohydrate uptake and poly(3-Hydroxybutyrate) accumulation in Ralstonia eutropha H16. Appl Environ Microbiol. 2011 Jun;77(11):3582-90. doi: 10.1128/AEM.00218-11. Epub 2011 Apr 8.
2011 Jun degradation 7 1 CE9
PUL0397 gene deletion mutant and growth assay N-acetylglucosamine Capnocytophaga canimorsus 21762219
The genome and surface proteome of Capnocytophaga canimorsus reveal a key role of glycan foraging systems in host glycoproteins deglycosylation. Mol Microbiol. 2011 Aug;81(4):1050-60. doi: 10.1111/j.1365-2958.2011.07750.x. Epub 2011 Jul 18.
2011 Aug degradation 5 1 GH18
PUL0398 gene deletion mutant and growth assay N-acetylglucosamine Capnocytophaga canimorsus 21762219
The genome and surface proteome of Capnocytophaga canimorsus reveal a key role of glycan foraging systems in host glycoproteins deglycosylation. Mol Microbiol. 2011 Aug;81(4):1050-60. doi: 10.1111/j.1365-2958.2011.07750.x. Epub 2011 Jul 18.
2011 Aug degradation 9 1 GH2
PUL0399 microarray beta-galactooligosaccharide Lactobacillus acidophilus 22006318
Transcriptional and functional analysis of galactooligosaccharide uptake by lacS in Lactobacillus acidophilus. Proc Natl Acad Sci U S A. 2011 Oct 25;108(43):17785-90. doi: 10.1073/pnas.1114152108. Epub 2011 Oct 17.
2011 Oct 25 degradation 12 2 GH42, GH2
PUL0400 RT-qPCR, RNA-Seq alginate Alteromonas macleodii 25847866, 30116038
Different utilization of alginate and other algal polysaccharides by marine Alteromonas macleodii ecotypes. Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. Environ Microbiol. 2015 Oct;17(10):3857-68. doi: 10.1111/1462-2920.12862. Epub 2015 May 8. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16.
2015 Oct,2019 Jan degradation 14 5 PL6_1, PL6, PL17, PL17_2, CBM32, PL7_5, PL6_3, PL7_5
PUL0401 RNA-Seq laminarin Alteromonas macleodii 30116038
Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16.
2019 Jan degradation 9 3 CBM4, GH16, GH3
PUL0402 Northern Blot, enzyme activity assay xylan, xylose Lactococcus lactis subsp. lactis IO-1 11282589
Genetic evidence for a defective xylan degradation pathway in Lactococcus lactis. Appl Environ Microbiol. 2001 Apr;67(4):1445-52. doi: 10.1128/AEM.67.4.1445-1452.2001.
2001 Apr degradation 6 1 GH43_11, GH43
PUL0403 RNA-Seq laminarin Alteromonas macleodii 30116038
Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16.
2019 Jan degradation 4 1 GH1
PUL0404 RNA-Seq pectin Alteromonas macleodii 30116038
Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16.
2019 Jan degradation 18 4 CE12, GH105, GH28, CE8
PUL0405 RNA-Seq pectin Alteromonas macleodii 30116038
Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16.
2019 Jan degradation 4 2 PL1, PL1_2, PL1_5, CE8
PUL0406 high performance anion exchange chromatography beta-glucan Coprothermobacter proteolyticus 30315317
From proteins to polysaccharides: lifestyle and genetic evolution of Coprothermobacter proteolyticus. ISME J. 2019 Mar;13(3):603-617. doi: 10.1038/s41396-018-0290-y. Epub 2018 Oct 12.
2019 Mar degradation 20 3 GH16, GH3, GH18
PUL0407 primer extension analysis, enzyme activity assay lactose Lactobacillus casei 9066115
Establishing a model to study the regulation of the lactose operon in Lactobacillus casei. FEMS Microbiol Lett. 1997 Mar 1;148(1):83-9. doi: 10.1111/j.1574-6968.1997.tb10271.x.
1997 Mar 1 degradation 4 1 GH1
PUL0408 enzyme activity assay, thin layer chromatography mannan Bacteroides fragilis 24217874
The mannobiose-forming exo-mannanase involved in a new mannan catabolic pathway in Bacteroides fragilis. Arch Microbiol. 2014 Jan;196(1):17-23. doi: 10.1007/s00203-013-0938-y. Epub 2013 Nov 12.
2014 Jan degradation 4 2 GH26, GH130
PUL0409 RT-qPCR polysialic acid Escherichia coli 21545489
Growth temperature regulation of some genes that define the superficial capsular carbohydrate composition of Escherichia coli K92. FEMS Microbiol Lett. 2011 Jul;320(2):135-41. doi: 10.1111/j.1574-6968.2011.02300.x. Epub 2011 May 31.
2011 Jul biosynthesis 14 1 GT38
PUL0410 RT-qPCR sialic acid Escherichia coli 21545489
Growth temperature regulation of some genes that define the superficial capsular carbohydrate composition of Escherichia coli K92. FEMS Microbiol Lett. 2011 Jul;320(2):135-41. doi: 10.1111/j.1574-6968.2011.02300.x. Epub 2011 May 31.
2011 Jul degradation 7 1 GH33
PUL0411 enzyme activity assay xylan Prevotella bryantii 7487028
A xylan hydrolase gene cluster in Prevotella ruminicola B(1)4: sequence relationships, synergistic interactions, and oxygen sensitivity of a novel enzyme with exoxylanase and beta-(1,4)-xylosidase activities. Appl Environ Microbiol. 1995 Aug;61(8):2958-64. doi: 10.1128/AEM.61.8.2958-2964.1995.
1995 Aug degradation 2 2 GH10, GH43_1
PUL0412 clone and expression, enzyme activity assay polygalacturonic acid Ralstonia solanacearum 12795379
Characterization of a Ralstonia solanacearum operon required for polygalacturonate degradation and uptake of galacturonic acid. Mol Plant Microbe Interact. 2003 Jun;16(6):536-44. doi: 10.1094/MPMI.2003.16.6.536.
2003 Jun degradation 2 1 GH28
PUL0413 enzyme activity assay, reducing-sugar assay cellobiose uncultured bacterium contig00059 30116044
Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite. ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16.
2019 Jan degradation 31 1 GH44
PUL0414 enzyme activity assay, thin layer chromatography xylan uncultured bacterium 35A20 30116044
Functional metagenomics reveals abundant polysaccharide-degrading gene clusters and cellobiose utilization pathways within gut microbiota of a wood-feeding higher termite. ISME J. 2019 Jan;13(1):104-117. doi: 10.1038/s41396-018-0255-1. Epub 2018 Aug 16.
2019 Jan degradation 28 7 GH10, GH10
PUL0415 microarray xylan, glucomannan, plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 4 2 GH20, GH20
PUL0416 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 12 1 CE6, GH105, GH151
PUL0417 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 13 1 CE6, GH105
PUL0418 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 9 2 CE1, CE1
PUL0419 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 11 5 GH5, GH5_2, GH5_5, GH2, GH5, GH5_5, GH140, GH130, CBM67, GH78
PUL0420 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 4 1 GH144, GH3
PUL0421 microarray starch Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 7 3 GH13, GH13_10, GH97, GH13
PUL0422 microarray host glycan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 4 1 GH18
PUL0423 clone and expression, enzyme activity assay cellobiose Thermotoga neapolitana 10960102
Cloning and characterization of the glucooligosaccharide catabolic pathway beta-glucan glucohydrolase and cellobiose phosphorylase in the marine hyperthermophile Thermotoga neapolitana. J Bacteriol. 2000 Sep;182(18):5172-9. doi: 10.1128/jb.182.18.5172-5179.2000.
2000 Sep degradation 3 2 GH94
PUL0424 microarray host glycan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 18 1 GH18, GH163, GH130, GH92
PUL0425 microarray fructan, inulin Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 11 4 GH32, GH91, GH91, GH32
PUL0426 microarray mucin, O-glycan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 13 5 GH0, GH92, GH92
PUL0427 microarray plant polysaccharide Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 6 2 GH53, GH147
PUL0428 transposon mutagenesis, growth assay exopolysaccharide Staphylococcus epidermidis 8809760
Molecular basis of intercellular adhesion in the biofilm-forming Staphylococcus epidermidis. Mol Microbiol. 1996 Jun;20(5):1083-91. doi: 10.1111/j.1365-2958.1996.tb02548.x.
1996 Jun biosynthesis 5 1 CE4
PUL0429 sequence homology analysis O-antigen, unknown polysaccharide Sinorhizobium meliloti 21396969
The complete genome sequence of the dominant Sinorhizobium meliloti field isolate SM11 extends the S. meliloti pan-genome. J Biotechnol. 2011 Aug 20;155(1):20-33. doi: 10.1016/j.jbiotec.2010.12.018. Epub 2011 Mar 17.
2011 Aug 20 biosynthesis 42 4 GT2, GT2, GT4, GT2
PUL0430 RT-PCR, microarray, differential gene expression O-antigen, exopolysaccharide Clavibacter michiganensis 22326627
Analysis of the interaction of Clavibacter michiganensis subsp. michiganensis with its host plant tomato by genome-wide expression profiling. J Biotechnol. 2012 Jul 31;160(1-2):42-54. doi: 10.1016/j.jbiotec.2012.01.023. Epub 2012 Feb 1.
2012 Jul 31 biosynthesis 13 2 GT4, GT4, GT94
PUL0431 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia coli 27454490
Structure elucidation and gene cluster characterization of the O-antigen of Escherichia coli O80. Carbohydr Res. 2016 Sep 2;432:83-7. doi: 10.1016/j.carres.2016.07.011. Epub 2016 Jul 14.
2016 Sep 2 biosynthesis 18 4 GT26
PUL0432 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia coli 27645300
Structures and gene clusters of the O-specific polysaccharides of the lipopolysaccharides of Escherichia coli O69 and O146 containing glycolactilic acids: ether conjugates of D-GlcNAc and D-Glc with (R)- and (S)-lactic acid. Glycoconj J. 2017 Feb;34(1):71-84. doi: 10.1007/s10719-016-9730-y. Epub 2016 Sep 19.
2017 Feb biosynthesis 11 3 GT4, GT2
PUL0433 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia coli 27645300
Structures and gene clusters of the O-specific polysaccharides of the lipopolysaccharides of Escherichia coli O69 and O146 containing glycolactilic acids: ether conjugates of D-GlcNAc and D-Glc with (R)- and (S)-lactic acid. Glycoconj J. 2017 Feb;34(1):71-84. doi: 10.1007/s10719-016-9730-y. Epub 2016 Sep 19.
2017 Feb biosynthesis 12 3 GT2
PUL0434 SDS-PAGE, Western Blot mannooligosaccharide Clostridium cellulovorans 10613891
The engL gene cluster of Clostridium cellulovorans contains a gene for cellulosomal manA. J Bacteriol. 2000 Jan;182(1):244-7. doi: 10.1128/jb.182.1.244-247.2000.
2000 Jan degradation 8 2 CBM30, CBM4, GH9, GH9, GH5_17, CBM4, GH9, CBM4
PUL0435 mass spectrometry, high performance anion exchange chromatography glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 13 4 GH43, GH43_34, GH30, GH30_1, GH30, GH30_3, GH16
PUL0436 mass spectrometry, high performance anion exchange chromatography glucomannan Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 8 2 GH65, GH13, CBM32
PUL0437 mass spectrometry, high performance anion exchange chromatography glucomannan Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 6 1 GH51
PUL0438 mass spectrometry, high performance anion exchange chromatography glucomannan, glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 7 3 GH89, GH158
PUL0439 mass spectrometry, high performance anion exchange chromatography glucomannan, glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 4 1 GH33
PUL0440 mass spectrometry, high performance anion exchange chromatography glucomannan, galactomannan Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 5 2 GH2, GH76, CBM13
PUL0441 mass spectrometry, high performance anion exchange chromatography glucomannan, galactomannan Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 6 2 GH130, CBM13, GH43_26
PUL0442 mass spectrometry, high performance anion exchange chromatography glucomannan, galactomannan, glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 9 3 CBM5, GH18, GH18, GH64, CBM6, GH16, CBM6
PUL0443 mass spectrometry, high performance anion exchange chromatography glucomannan, galactomannan, glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 9 3 GH16, CBM6
PUL0444 mass spectrometry, high performance anion exchange chromatography glucomannan, galactomannan, glucose Chitinophaga pinensis 28069559
Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6.
2017 Mar 6 degradation 6 2 GH31, GH19, CBM5
PUL0445 expression of recombinant proteins, thin layer chromatography, enzyme activity assay alginate Sphingomonas sp. 10913091
Molecular identification of oligoalginate lyase of Sphingomonas sp. strain A1 as one of the enzymes required for complete depolymerization of alginate. J Bacteriol. 2000 Aug;182(16):4572-7. doi: 10.1128/jb.182.16.4572-4577.2000.
2000 Aug degradation 8 2 PL7, PL5, PL15_1
PUL0446 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia albertii 28494314
Structure and gene cluster of the O-antigen of Escherichia albertii O1 resembling the O-antigen of Pseudomonas aeruginosa O5. Carbohydr Res. 2017 Jun 29;446-447:28-31. doi: 10.1016/j.carres.2017.04.024. Epub 2017 May 2.
2017 Jun 29 biosynthesis 17 2 GT4
PUL0447 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia albertii 28672166
Structures and gene clusters of the O-antigens of Escherichia albertii O3, O4, O6, and O7. Carbohydr Res. 2017 Sep 8;449:17-22. doi: 10.1016/j.carres.2017.06.008. Epub 2017 Jun 17.
2017 Sep 8 biosynthesis 14 4 GT4, GT4
PUL0448 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia albertii 28672166
Structures and gene clusters of the O-antigens of Escherichia albertii O3, O4, O6, and O7. Carbohydr Res. 2017 Sep 8;449:17-22. doi: 10.1016/j.carres.2017.06.008. Epub 2017 Jun 17.
2017 Sep 8 biosynthesis 19 4 GT4
PUL0449 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia albertii 28672166
Structures and gene clusters of the O-antigens of Escherichia albertii O3, O4, O6, and O7. Carbohydr Res. 2017 Sep 8;449:17-22. doi: 10.1016/j.carres.2017.06.008. Epub 2017 Jun 17.
2017 Sep 8 biosynthesis 13 4 GT4, GT2, GT4
PUL0450 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia albertii 28672166
Structures and gene clusters of the O-antigens of Escherichia albertii O3, O4, O6, and O7. Carbohydr Res. 2017 Sep 8;449:17-22. doi: 10.1016/j.carres.2017.06.008. Epub 2017 Jun 17.
2017 Sep 8 biosynthesis 14 3 GT52, GT2, GT2
PUL0451 sequence homology analysis, sugar utilization assay, NMR, gas chromatography and mass spectrometry O-antigen Streptococcus pneumoniae 28837839
Genetic and structural elucidation of capsular polysaccharides from Streptococcus pneumoniae serotype 23A and 23B, and comparison to serotype 23F. Carbohydr Res. 2017 Oct 10;450:19-29. doi: 10.1016/j.carres.2017.08.006. Epub 2017 Aug 18.
2017 Oct 10 biosynthesis 18 5 GT4
PUL0452 sequence homology analysis, sugar utilization assay, NMR, gas chromatography and mass spectrometry O-antigen Streptococcus pneumoniae 28837839
Genetic and structural elucidation of capsular polysaccharides from Streptococcus pneumoniae serotype 23A and 23B, and comparison to serotype 23F. Carbohydr Res. 2017 Oct 10;450:19-29. doi: 10.1016/j.carres.2017.08.006. Epub 2017 Aug 18.
2017 Oct 10 biosynthesis 18 5 GT4, GT2
PUL0453 sequence homology analysis, sugar utilization assay, NMR, gas chromatography and mass spectrometry O-antigen Streptococcus pneumoniae 28837839
Genetic and structural elucidation of capsular polysaccharides from Streptococcus pneumoniae serotype 23A and 23B, and comparison to serotype 23F. Carbohydr Res. 2017 Oct 10;450:19-29. doi: 10.1016/j.carres.2017.08.006. Epub 2017 Aug 18.
2017 Oct 10 biosynthesis 18 5 GT4
PUL0454 SDS-PAGE, protein fingerprinting (MALDI-TOF PMF) acarbose Actinoplanes sp. SE50/110 22944206
The cytosolic and extracellular proteomes of Actinoplanes sp. SE50/110 led to the identification of gene products involved in acarbose metabolism. J Biotechnol. 2013 Aug 20;167(2):178-89. doi: 10.1016/j.jbiotec.2012.08.011. Epub 2012 Aug 31.
2013 Aug 20 biosynthesis 22 4 GH13_13, CBM41, GH13, GT5, GT0, GT5, GT0, GH77, GH13_13, CBM41, CBM20, GH13_2
PUL0455 clone and expression, genes induced in presence of substrate, enzyme activity assay sucrose Bifidobacterium animalis 12513973
Induction of sucrose utilization genes from Bifidobacterium lactis by sucrose and raffinose. Appl Environ Microbiol. 2003 Jan;69(1):24-32. doi: 10.1128/aem.69.1.24-32.2003.
2003 Jan degradation 3 1 GH13, GH13_18
PUL0456 microarray, RNA-Seq xylan Prevotella bryantii 20622018
Transcriptomic analyses of xylan degradation by Prevotella bryantii and insights into energy acquisition by xylanolytic bacteroidetes. J Biol Chem. 2010 Sep 24;285(39):30261-73. doi: 10.1074/jbc.M110.141788. Epub 2010 Jul 9.
2010 Sep 24 degradation 13 6 CE6, GH43_10, GH43, GH43_1, GH43, GH10, GH67
PUL0457 high performance anion exchange chromatography, enzyme activity assay, RNA-Seq xylooligosaccharide Lactobacillus rossiae 27142164
Cloning, expression and characterization of a beta-D-xylosidase from Lactobacillus rossiae DSM 15814(T). Microb Cell Fact. 2016 May 3;15:72. doi: 10.1186/s12934-016-0473-z.
2016 May 3 degradation 7 1 GH43_11, GH43
PUL0458 RNA-Seq, analysis of reaction products, enzyme activity assay carrageenan Colwellia echini 31915221
A Multifunctional Polysaccharide Utilization Gene Cluster in Colwellia echini Encodes Enzymes for the Complete Degradation of kappa-Carrageenan, iota-Carrageenan, and Hybrid beta/kappa-Carrageenan. mSphere. 2020 Jan 8;5(1). pii: 5/1/e00792-19. doi: 10.1128/mSphere.00792-19.
2020 Jan 8 degradation 49 12 GH16, GH16, CBM16, GH16, GH16
PUL0459 RNA-Seq, analysis of reaction products, enzyme activity assay agar Colwellia echini 31915221
A Multifunctional Polysaccharide Utilization Gene Cluster in Colwellia echini Encodes Enzymes for the Complete Degradation of kappa-Carrageenan, iota-Carrageenan, and Hybrid beta/kappa-Carrageenan. mSphere. 2020 Jan 8;5(1). pii: 5/1/e00792-19. doi: 10.1128/mSphere.00792-19.
2020 Jan 8 degradation 48 10 GH2, GH96, CBM6, GH96, CBM6, GH50, GH50, GH29, GH50, GH86, GH117
PUL0460 recombinant protein expression, RT-PCR, enzyme activity assay carrageenan, agar Paraglaciecola hydrolytica 29774012
A Novel Enzyme Portfolio for Red Algal Polysaccharide Degradation in the Marine Bacterium Paraglaciecola hydrolytica S66(T) Encoded in a Sizeable Polysaccharide Utilization Locus. Front Microbiol. 2018 May 3;9:839. doi: 10.3389/fmicb.2018.00839. eCollection 2018.
2018 degradation 108 18 GH2, GH29, GH63, GH86, CBM6, GH50, GH86, GH50, GH117, GH50, GH16, GH50, CE1, GH16, GH127, GH16, GH82, GH16, GH16, GH16
PUL0461 sequence homology analysis, sugar utilization assay, NMR O-antigen Yersinia kristensenii 31220629
Structure elucidation and gene cluster characterization of the O-antigen of Yersinia kristensenii capital ES, Cyrillic-134. Carbohydr Res. 2019 Jul 15;481:9-15. doi: 10.1016/j.carres.2019.06.001. Epub 2019 Jun 6.
2019 Jul 15 biosynthesis 12 4 GT4, GT4, GT4
PUL0462 sequence homology analysis, sugar utilization assay, NMR O-antigen Escherichia coli 24607538
Structure elucidation and gene cluster annotation of the O-antigen of Escherichia coli O39; application of anhydrous trifluoroacetic acid for selective cleavage of glycosidic linkages. Carbohydr Res. 2014 Mar 31;388:30-6. doi: 10.1016/j.carres.2014.02.013. Epub 2014 Feb 18.
2014 Mar 31 biosynthesis 14 4 GT0, GT4, GT2
PUL0463 microarray, qPCR host glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 13 2 GH89, CE2
PUL0464 microarray, qPCR host glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 16 6 GH33, GH20, GH2, GH20, GH20, GH2
PUL0465 microarray, qPCR mucin Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 8 2 GH18
PUL0466 clone and expression, enzyme activity assay, Northern Blot arabinan Bacillus subtilis 14973026
Transcriptional regulation of genes encoding arabinan-degrading enzymes in Bacillus subtilis. J Bacteriol. 2004 Mar;186(5):1287-96. doi: 10.1128/jb.186.5.1287-1296.2004.
2004 Mar degradation 9 1 GH51
PUL0467 microarray, qPCR host glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 14 5 GH29, CBM32, GH2, GH20, GH18
PUL0468 microarray, qPCR host glycan Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 47 2 GH43, GH43_26, GH76
PUL0469 microarray, qPCR starch Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 8 3 GH97
PUL0470 microarray, qPCR mucin Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 7 1 GH18
PUL0471 microarray, qPCR mucin Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 9 3 GH92, GH92, GH92
PUL0472 microarray, qPCR mucin Bacteroides thetaiotaomicron 18996345
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007.
2008 Nov 13 degradation 28 8 GH38, GH92, CBM32, GH2, GH78, CBM67, CE1, GH92, GH92, GH130, GH43_8
PUL0473 growth assay alpha-glucan, starch Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 8 3 CBM26, GH13, GH97, GH13
PUL0474 growth assay beta-glucan, xylan Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 9 5 GH30_1, GH30, GH30_1, GH30, GH3, GH30_3, GH3
PUL0475 clone and expression, gene deletion mutant and growth assay cellobiose, cellotriose Streptomyces reticuli 10347054
Characterization of the binding protein-dependent cellobiose and cellotriose transport system of the cellulose degrader Streptomyces reticuli. Appl Environ Microbiol. 1999 Jun;65(6):2636-43. doi: 10.1128/AEM.65.6.2636-2643.1999.
1999 Jun degradation 7 1 GH18, CBM2
PUL0476 growth assay hemicellulose, pectin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 11 6 GH5, GH5_13, GH43_18, GH2, GH43, GH43_26, GH43_31, GH29, CBM32
PUL0477 growth assay beta-glucan Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 6 2 GH16, GH16
PUL0478 growth assay alpha-glucan, starch Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 8 4 GH2, GH92, GH92, GH125
PUL0479 growth assay pectin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 20 12 GH43, GH43_34, GH43_19, GH27, GH2, GH95, GH51, GH28, GH28, GH2, GH92, GH92, GH89
PUL0480 growth assay hemicellulose Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 9 4 GH3, GH10, GH16, GH8
PUL0481 growth assay, enzyme activity assay hemicellulose Flavobacterium johnsoniae 19717629, 32266006
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Multimodular fused acetyl-feruloyl esterases from soil and gut Bacteroidetes improve xylanase depolymerization of recalcitrant biomass. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. Biotechnol Biofuels. 2020 Mar 31;13:60. doi: 10.1186/s13068-020-01698-9. eCollection 2020.
2009 Nov,2020 degradation 13 7 GH97, GH3, GH43, GH43_10, CBM22, GH146, GH115, GH43_12, GH3
PUL0482 growth assay pectin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 27 17 GH78, CBM67, GH142, GH95, GH78, CBM67, GH143, GH43_18, GH43, GH28, GH140, PL1, CE8, PL1_2, PL1, CE8, PL1_2, CE8, GH127, PL1, PL1_2, GH139, GH106, GH2, GH137, GH78
PUL0483 growth assay pectin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 12 5 GH2, CE12, CE4, GH28, GH117, GH106, GH105
PUL0484 growth assay pectin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 12 8 CE12, GH28, PL10, CE8, PL10_1, GH43_10, GH43, GH105, GH105, GH105, GH28
PUL0485 growth assay dextran Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 9 5 GH65, GH97, GH31, GH66
PUL0486 RT-PCR, sugar utilization assay raffinose Streptococcus pneumoniae 10613841
Regulation of the alpha-galactosidase activity in Streptococcus pneumoniae: characterization of the raffinose utilization system. Genome Res. 1999 Dec;9(12):1189-97. doi: 10.1101/gr.9.12.1189.
1999 Dec degradation 8 2 GH13, GH13_18, GH36
PUL0487 growth assay chitin Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 10 3 GH18, GH20, GH18
PUL0488 growth assay beta-mannan Flavobacterium johnsoniae 19717629
Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28.
2009 Nov degradation 14 7 GH5, GH5_2, GH27, GH26, GH130, GH26, GH5_7, GH97
PUL0489 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 21 2 GT4
PUL0490 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 4 GT2, GT11
PUL0491 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 4 GT46, GT0
PUL0492 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 21 3 GT2, GT0
PUL0493 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 5 GT2, GT4, GT4, GT0, GT10, GT2
PUL0494 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 23 3 GT4, GT4, GT4
PUL0495 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 22 4 GT2, GT2, GT4, GT94, GT2
PUL0496 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 16 5 GT2, GT2, GT2, GT2
PUL0497 clone and expression, enzyme activity assay chitin Pseudoalteromonas piscicida 11772635
Identification and characterization of the gene cluster involved in chitin degradation in a marine bacterium, Alteromonas sp. strain O-7. Appl Environ Microbiol. 2002 Jan;68(1):263-70. doi: 10.1128/aem.68.1.263-270.2002.
2002 Jan degradation 3 2 CBM5, GH18, CBM5, AA10, CBM5, GH18
PUL0498 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 25 8 GT2, GT4, GT11, GT4, GT4, GT4, GT26
PUL0499 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 7 GT2, GT2, GT101, GT0, GT4, GT2, GT2, GT2
PUL0500 sequence homology analysis, microscopy O-glycan Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 9 4 GT4, GT0, GT94, GT4, GT4, GT2
PUL0501 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 9 3 GT2, GT4
PUL0502 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 5 GT11, GT2, GT2, GT4
PUL0503 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 16 6 GT11, GT4, GT2, GT4, CE4, CE0, GT4, GT2
PUL0504 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 16 5 GT2, GT2, GT2, GT11, GT0, GT10
PUL0505 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 5 GT4, GT4, GT4, GT2, GT2
PUL0506 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 15 4 GT8, GT2, GT2
PUL0507 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 19 4 PL12
PUL0508 clone and expression, enzyme activity assay xylobiose, xylotriose Streptomyces thermoviolaceus 14761997
Molecular characterization of a high-affinity xylobiose transporter of Streptomyces thermoviolaceus OPC-520 and its transcriptional regulation. J Bacteriol. 2004 Feb;186(4):1029-37. doi: 10.1128/jb.186.4.1029-1037.2004.
2004 Feb degradation 5 2 GH3
PUL0509 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 6 GT2, GT4, GT2, GT2, GT2, GT10
PUL0510 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 27 7 GT2, GT2, GT2, GT2, GT4, GT4, GT26
PUL0511 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 6 GT2, GT2, GT4, GT2, GT2
PUL0512 sequence homology analysis, microscopy O-glycan Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 10 4 GT4, GT0, GT94, GT4, GT4, GT2
PUL0513 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 16 2 GT2, GT2
PUL0514 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 5 GT11, GT2, GT2, GT4
PUL0515 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 4 GT0, GT46
PUL0516 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 13 5 GT4, GT4, GT2, GT4
PUL0517 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 19 5 GT2, GT2, GT11, GT2
PUL0518 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 22 4 GT2, GT2, GT4, GT4
PUL0519 gene deletion mutant and growth assay maltose Streptococcus pneumoniae 8244973
Characterization of the Streptococcus pneumoniae maltosaccharide regulator MalR, a member of the LacI-GalR family of repressors displaying distinctive genetic features. J Biol Chem. 1993 Dec 5;268(34):25402-8.
1993 Dec 5 degradation 7 2 GT35, GH77
PUL0520 clone and expression, enzyme activity assay xylobiose, xylodextrin Klebsiella oxytoca 14532050
Cloning, characterization, and functional expression of the Klebsiella oxytoca xylodextrin utilization operon (xynTB) in Escherichia coli. Appl Environ Microbiol. 2003 Oct;69(10):5957-67. doi: 10.1128/aem.69.10.5957-5967.2003.
2003 Oct degradation 2 1 GH43, GH43_11
PUL0521 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 23 3 GT2, GT4
PUL0522 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 20 7 GT2, GT4, GT2, GT32, GT2, GT2
PUL0523 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 14 5 GT4, GT4, GT4, GT26
PUL0524 sequence homology analysis, microscopy capsule polysaccharide Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 13 7 GT2, GT2, GT4, GT101, GT0, GT4, GT2, GT2
PUL0525 sequence homology analysis, microscopy O-glycan Bacteroides fragilis 20829291
Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis. Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.
2010 Nov biosynthesis 9 5 GT0, GT94, GT4, GT4, GT2
PUL0526 microarray, qPCR beta-glucan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 6 2 GH30_3, GH30, GH3
PUL0527 microarray, qPCR xyloglucan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 16 8 GH3, GH2, GH31, GH9, GH5_4, GH43_12, GH43_12, GH3
PUL0528 microarray, qPCR beta-glucan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 7 3 GH3, GH16, GH3
PUL0529 microarray, qPCR homogalacturonan Bacteroides ovatus 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 27 13 GH105, CE8, CE12, CE4, CE8, PL1, CE8, PL1_2, PL1, PL1_2, PL1, PL1_2, CE8, PL1, PL1_2, PL1, CE8, PL1_2, CE8, GH28, GH3, GH43_10, CBM6
PUL0530 microarray, qPCR rhamnogalacturonan Bacteroides thetaiotaomicron 22205877
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2011 Dec degradation 54 21 PL1, CE8, PL1_2, GH2, GH139, GH106, GH2, GH2, GH137, GH2, CBM57, GH138, GH78, GH141, GH127, GH95, GH105, GH140, GH78, GH33, CBM67, GH28, GH78, CBM67, GH143, GH142, GH43_18, GH43, PL1, CE8, PL1_2
PUL0531 clone and expression, enzyme activity assay chitobiose Serratia marcescens 12618440
Uptake of N,N'-diacetylchitobiose [(GlcNAc)2] via the phosphotransferase system is essential for chitinase production by Serratia marcescens 2170. J Bacteriol. 2003 Mar;185(6):1776-82. doi: 10.1128/jb.185.6.1776-1782.2003.
2003 Mar degradation 5 1 GH1
PUL0532 RNA-Seq arabinan, pectin Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 17 5 GH51, GH43_4, GH43, GH43_4, GH43, GH146, GH51
PUL0533 RNA-Seq xylan, arabinoxylan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 9 3 GH115, GH10, GH30_8
PUL0534 RNA-Seq pectin Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 9 5 GH133, GH0, GH13, GH13_10, GH2, GH53, GH147
PUL0535 RNA-Seq arabinogalactan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 9 2 GH16, GH43, GH43_24, GH16
PUL0536 RNA-Seq N-acetyl-D-glucosamine, glucosamine Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 1 GH2
PUL0537 RNA-Seq beta-glucan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 7 3 GH3, GH3, GH157
PUL0538 RNA-Seq galactomannan, glucomannan, cellobiose, xyloglucan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 15 7 GH130, GH26, GH26, GH5_2, GH5, GH5_7, CE7, GH3
PUL0539 RNA-Seq fucose, galacturonic acid, rhamnose Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 16 7 PL1_2, CE8, PL1, GH28, GH105, GH28, PL11, GH106, GH105
PUL0540 RNA-Seq pullulan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 3 GH97, GH13, GH13
PUL0541 RNA-Seq N-acetyl-D-galactosamine, chondrotin sulfate Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 5 1 PL8_2
PUL0542 binding assay xylan Geobacillus stearothermophilus 10368143
The glucuronic acid utilization gene cluster from Bacillus stearothermophilus T-6. J Bacteriol. 1999 Jun;181(12):3695-704. doi: 10.1128/JB.181.12.3695-3704.1999.
1999 Jun degradation 30 6 CE4, GH52, GH10, GH67, GH39, GH43_11
PUL0543 RNA-Seq cellobiose, beta-glucan, glucosamine Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 3 GH30, GH30_3, GH2, CBM57, GH88
PUL0544 RNA-Seq ribose Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 9 3 GH2
PUL0545 RNA-Seq arabinan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 10 5 GH43_2, CBM6, GH43, GH3, GH43_17, GH9, GH43_7, CBM13, CE1
PUL0546 RNA-Seq arabinogalactan, cellobiose Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 8 4 GH2, GH30_4, GH51
PUL0547 RNA-Seq mannose Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 11 4 GH130, GH26, GH2, GH3
PUL0548 RNA-Seq arabinose Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 7 3 GH28, GH92, GH92
PUL0549 RNA-Seq polygalacturonic acid Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 1 GH140
PUL0550 RNA-Seq N-acetyl-D-galactosamine Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 7 3 CE8, PL1, PL1_2, CE8, GH3
PUL0551 RNA-Seq cellobiose, beta-glucan, glucomannan, laminarin Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 2 GH16, GH3
PUL0552 RNA-Seq arabinan Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 7 4 PL1_2, CE8, PL1, GH43_18, GH43, GH142, GH143, GH78, CBM67
PUL0553 RT-PCR, qPCR xylan Bacteroides xylanisolvens 27142817
Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics. 2016 May 4;17:326. doi: 10.1186/s12864-016-2680-8.
2016 May 4 degradation 21 13 GH43_10, GH43, CBM6, GH3, GH43, GH43_12, GH31, GH97, CBM66, CBM6, GH43, GH43_29, GH43, GH43_12, CBM4, CBM0, GH10, GH5_21, CE1, CE6, CBM6, GH43_29, GH95, GH115
PUL0554 RNA-Seq dextran Bacteroides cellulosilyticus 23976882
Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20.
2013 degradation 6 3 GH66, GH31, GH97
PUL0555 gene deletion mutant and growth assay, qRT-PCR, microarray, enzyme activity assay N-glycan Bacteroides fragilis 25139987
Efficient utilization of complex N-linked glycans is a selective advantage for Bacteroides fragilis in extraintestinal infections. Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12901-6. doi: 10.1073/pnas.1407344111. Epub 2014 Aug 19.
2014 Sep 2 degradation 9 5 GH154, GH2, GH20, GH88, PL0, PL33_1
PUL0556 gene deletion mutant and growth assay, qRT-PCR, microarray, enzyme activity assay N-glycan Bacteroides fragilis 25139987
Efficient utilization of complex N-linked glycans is a selective advantage for Bacteroides fragilis in extraintestinal infections. Proc Natl Acad Sci U S A. 2014 Sep 2;111(35):12901-6. doi: 10.1073/pnas.1407344111. Epub 2014 Aug 19.
2014 Sep 2 degradation 7 1 GH18
PUL0557 gene deletion mutant and growth assay alpha-mannan Bacteroides thetaiotaomicron 25567280
Human gut Bacteroidetes can utilize yeast mannan through a selfish mechanism. Nature. 2015 Jan 8;517(7533):165-169. doi: 10.1038/nature13995.
2015 Jan 8 degradation 13 6 GH97, GH67, GH76, GH92, GH76, GH125
PUL0558 gene deletion mutant and growth assay, growth assay, enzyme activity assay rhamnogalacturonan Bacteroides thetaiotaomicron 28329766
Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Nature. 2017 Apr 6;544(7648):65-70. doi: 10.1038/nature21725. Epub 2017 Mar 22.
2017 Apr 6 degradation 50 20 GH2, GH139, GH106, GH2, GH2, GH2, CBM57, GH137, GH138, GH78, GH141, GH127, GH95, GH105, GH140, CBM67, GH33, GH78, GH28, CBM67, GH78, GH142, GH143, GH43_18, GH43, CE8, PL1_2, PL1
PUL0559 gene deletion mutant and growth assay, growth assay, enzyme activity assay rhamnogalacturonan Bacteroides thetaiotaomicron 28329766
Complex pectin metabolism by gut bacteria reveals novel catalytic functions. Nature. 2017 Apr 6;544(7648):65-70. doi: 10.1038/nature21725. Epub 2017 Mar 22.
2017 Apr 6 degradation 12 5 CBM32, GH43_34, GH43_10, GH97, GH29
PUL0560 microarray, qPCR arabinogalactan Bacteroides thetaiotaomicron 18996345, 22205877
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2008 Nov 13,2011 Dec degradation 30 4 PL27, GH43_24, GH43, GH43_24, GH35, CBM32
PUL0561 clone and expression, enzyme activity assay alpha-galactoside Lactobacillus plantarum 12406739
Characterization of the melA locus for alpha-galactosidase in Lactobacillus plantarum. Appl Environ Microbiol. 2002 Nov;68(11):5464-71. doi: 10.1128/aem.68.11.5464-5471.2002.
2002 Nov degradation 5 2 GH36, GH2
PUL0562 microarray, qPCR host glycan, rhamnogalacturonan Bacteroides thetaiotaomicron 18996345, 22205877
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2008 Nov 13,2011 Dec degradation 11 4 CBM32, GH43_34, GH43_10, GH97, GH29
PUL0563 microarray, qPCR arabinogalactan Bacteroides thetaiotaomicron 18996345, 22205877
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2008 Nov 13,2011 Dec degradation 14 7 GH127, GH43, GH43_34, GH154, GH43, GH16, GH43_24, GH43_24, GH145, GH105
PUL0564 microarray, qPCR rhamnogalacturonan Bacteroides thetaiotaomicron 18996345, 22205877
Mucosal glycan foraging enhances fitness and transmission of a saccharolytic human gut bacterial symbiont. Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Cell Host Microbe. 2008 Nov 13;4(5):447-57. doi: 10.1016/j.chom.2008.09.007. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20.
2008 Nov 13,2011 Dec degradation 39 23 GH106, GH28, GH28, CE12, GH2, GH43, GH43_18, GH42, GH28, CE4, CE0, GH28, GH2, GH27, CBM35, GH35, PL9, PL9_1, PL26, CE12, GH105, PL11, PL11_1, GH105, CE4, CE0, CE6, GH2, PL9_1
PUL0565 microarray, qPCR galactomannan, glucomannan Bacteroides ovatus 22205877, 27872187
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Galactomannan Catabolism Conferred by a Polysaccharide Utilization Locus of Bacteroides ovatus: ENZYME SYNERGY AND CRYSTAL STRUCTURE OF A beta-MANNANASE. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. J Biol Chem. 2017 Jan 6;292(1):229-243. doi: 10.1074/jbc.M116.746438. Epub 2016 Nov 21.
2011 Dec,2017 Jan 6 degradation 10 4 GH130, GH36, GH26, GH26
PUL0566 microarray, qPCR pectin Bacteroides ovatus 22205877, 29255254
Recognition and degradation of plant cell wall polysaccharides by two human gut symbionts. Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. PLoS Biol. 2011 Dec;9(12):e1001221. doi: 10.1371/journal.pbio.1001221. Epub 2011 Dec 20. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18.
2011 Dec,2018 Feb degradation 7 3 GH2, GH53, GH147
PUL0567 clone and expression, enzyme activity assay chitin Pseudoalteromonas sp. S9 10220172
Multiple genes involved in chitin degradation from the marine bacterium Pseudoalteromonas sp. strain S91. Microbiology (Reading). 1999 Apr;145 ( Pt 4):925-934. doi: 10.1099/13500872-145-4-925.
1999 Apr degradation 3 3 CBM5, GH18, AA10, CBM5, CBM5, GH18
PUL0568 clone and expression, enzyme activity assay, Northern Blot sucrose Clostridium beijerinckii 10411273
The genes controlling sucrose utilization in Clostridium beijerinckii NCIMB 8052 constitute an operon. Microbiology (Reading). 1999 Jun;145 ( Pt 6):1461-1472. doi: 10.1099/13500872-145-6-1461.
1999 Jun degradation 4 1 GH32
PUL0569 clone and expression, enzyme activity assay, Northern Blot levan Bacillus subtilis 11739774
yveB, Encoding endolevanase LevB, is part of the sacB-yveB-yveA levansucrase tricistronic operon in Bacillus subtilis. Microbiology (Reading). 2001 Dec;147(Pt 12):3413-9. doi: 10.1099/00221287-147-12-3413.
2001 Dec degradation 3 1 GH68, GH32
PUL0570 clone and expression, enzyme activity assay cellobiose Corynebacterium glutamicum 12777497
A single V317A or V317M substitution in Enzyme II of a newly identified beta-glucoside phosphotransferase and utilization system of Corynebacterium glutamicum R extends its specificity towards cellobiose. Microbiology (Reading). 2003 Jun;149(Pt 6):1569-1580. doi: 10.1099/mic.0.26053-0.
2003 Jun degradation 3 1 GH1
PUL0571 Northern Blot chitooligosaccharide Salmonella enterica 19638370
Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its target. Genes Dev. 2009 Sep 1;23(17):2004-15. doi: 10.1101/gad.541609. Epub 2009 Jul 28.
2009 Sep 1 degradation 8 1 GH4
PUL0572 enzyme activity assay alginate Pseudomonas aeruginosa 8335634
Characterization of the Pseudomonas aeruginosa alginate lyase gene (algL): cloning, sequencing, and expression in Escherichia coli. J Bacteriol. 1993 Aug;175(15):4780-9. doi: 10.1128/jb.175.15.4780-4789.1993.
1993 Aug biosynthesis 12 1 PL5, PL5_1
PUL0573 enzyme activity assay, electrophoretic mobility shift assay, RT-PCR, qRT-PCR cellobiose, cellulose, cellooligosaccharide Streptomyces griseus 19648249
CebR as a master regulator for cellulose/cellooligosaccharide catabolism affects morphological development in Streptomyces griseus. J Bacteriol. 2009 Oct;191(19):5930-40. doi: 10.1128/JB.00703-09. Epub 2009 Jul 31.
2009 Oct degradation 5 1 GH1
PUL0574 enzyme activity assay alpha-mannoside, N-glycan Streptococcus pyogenes 16822234
Functional analysis of a group A streptococcal glycoside hydrolase Spy1600 from family 84 reveals it is a beta-N-acetylglucosaminidase and not a hyaluronidase. Biochem J. 2006 Oct 15;399(2):241-7. doi: 10.1042/BJ20060307.
2006 Oct 15 degradation 8 2 GH1, GH84, GH125, GH38
PUL0575 microarray, growth assay, gene deletion mutant and growth assay raffinose Enterococcus faecium 20946531
A genetic element present on megaplasmids allows Enterococcus faecium to use raffinose as carbon source. Environ Microbiol. 2011 Feb;13(2):518-28. doi: 10.1111/j.1462-2920.2010.02355.x. Epub 2010 Oct 15.
2011 Feb degradation 11 2 GH13, GH13_18, GH13_31, GH13, GH36, GH4
PUL0576 growth assay mucin, human milk oligosaccharide, O-glycan Bifidobacterium bifidum 20974960
Genome analysis of Bifidobacterium bifidum PRL2010 reveals metabolic pathways for host-derived glycan foraging. Proc Natl Acad Sci U S A. 2010 Nov 9;107(45):19514-9. doi: 10.1073/pnas.1011100107. Epub 2010 Oct 25.
2010 Nov 9 degradation 9 1 GH112
PUL0577 SDS-PAGE, enzyme activity assay chitin, chitobiose, cellobiose Photobacterium profundum 21098515
Elucidation of exo-beta-D-glucosaminidase activity of a family 9 glycoside hydrolase (PBPRA0520) from Photobacterium profundum SS9. Glycobiology. 2011 Apr;21(4):503-11. doi: 10.1093/glycob/cwq191. Epub 2010 Nov 22.
2011 Apr degradation 11 3 GH94, GH20, GH9
PUL0578 qRT-PCR, enzyme activity assay, electrophoretic mobility shift assay cellodextrin Bifidobacterium breve 21216899
Cellodextrin utilization by bifidobacterium breve UCC2003. Appl Environ Microbiol. 2011 Mar;77(5):1681-90. doi: 10.1128/AEM.01786-10. Epub 2011 Jan 7.
2011 Mar degradation 5 1 GH1
PUL0579 microarray, qRT-PCR, Western Blot, immunoprecipitation N-acetylglucosamine Vibrio cholerae 21488982
Two gene clusters co-ordinate for a functional N-acetylglucosamine catabolic pathway in Vibrio cholerae. Mol Microbiol. 2011 Jun;80(6):1549-60. doi: 10.1111/j.1365-2958.2011.07664.x. Epub 2011 May 5.
2011 Jun degradation 3 1 CE9
PUL0580 microarray, qRT-PCR, Western Blot, immunoprecipitation N-acetylglucosamine Vibrio cholerae 21488982
Two gene clusters co-ordinate for a functional N-acetylglucosamine catabolic pathway in Vibrio cholerae. Mol Microbiol. 2011 Jun;80(6):1549-60. doi: 10.1111/j.1365-2958.2011.07664.x. Epub 2011 May 5.
2011 Jun degradation 3 1 CE9
PUL0581 SDS-PAGE, enzyme activity assay inulin Microbulbifer sp. JAM-3301 22286980
Cloning and sequencing of inulinase and beta-fructofuranosidase genes of a deep-sea Microbulbifer species and properties of recombinant enzymes. Appl Environ Microbiol. 2012 Apr;78(7):2493-5. doi: 10.1128/AEM.07442-11. Epub 2012 Jan 27.
2012 Apr degradation 3 2 GH32, CBM38, GH32
PUL0582 NMR, microarray, enzyme activity assay, gene deletion mutant and growth assay lactose Lactococcus lactis 22660716
A specific mutation in the promoter region of the silent cel cluster accounts for the appearance of lactose-utilizing Lactococcus lactis MG1363. Appl Environ Microbiol. 2012 Aug;78(16):5612-21. doi: 10.1128/AEM.00455-12. Epub 2012 Jun 1.
2012 Aug degradation 5 1 GH1
PUL0583 enzyme activity assay, gene deletion mutant and growth assay cellobiose Geobacillus stearothermophilus 8407820
Cloning and sequencing of a cellobiose phosphotransferase system operon from Bacillus stearothermophilus XL-65-6 and functional expression in Escherichia coli. J Bacteriol. 1993 Oct;175(20):6441-50. doi: 10.1128/jb.175.20.6441-6450.1993.
1993 Oct degradation 5 1 CE0
PUL0584 microarray melibiose Lactococcus lactis 23530958
Genotype-phenotype matching analysis of 38 Lactococcus lactis strains using random forest methods. BMC Microbiol. 2013 Mar 26;13:68. doi: 10.1186/1471-2180-13-68.
2013 Mar 26 degradation 11 2 GH13, GH13_18, GH36
PUL0585 microarray, gene deletion mutant and growth assay, beta-galactosidase assays cellobiose Streptococcus pneumoniae 21778207
CelR-mediated activation of the cellobiose-utilization gene cluster in Streptococcus pneumoniae. Microbiology (Reading). 2011 Oct;157(Pt 10):2854-2861. doi: 10.1099/mic.0.051359-0. Epub 2011 Jul 21.
2011 Oct degradation 7 1 GH1
PUL0586 enzyme activity assay chitin Serratia marcescens 23047109
Regulation of chitinase production by the 5'-untranslated region of the ybfM in Serratia marcescens 2170. Biosci Biotechnol Biochem. 2012;76(10):1920-4. doi: 10.1271/bbb.120403. Epub 2012 Oct 7.
2012 degradation 3 1 GH20
PUL0587 RT-PCR, enzyme activity assay levan, inulin, fructan Prevotella intermedia 23266804
Identification and functional analysis of the gene cluster for fructan utilization in Prevotella intermedia. Gene. 2013 Feb 25;515(2):291-7. doi: 10.1016/j.gene.2012.12.023. Epub 2012 Dec 22.
2013 Feb 25 degradation 3 1 GH32
PUL0588 enzyme activity assay, RT-PCR chitin Streptomyces coelicolor 23278377
Enzymatic and genetic characterization of the DasD protein possessing N-acetyl-beta-d-glucosaminidase activity in Streptomyces coelicolor A3(2). FEMS Microbiol Lett. 2013 Mar;340(1):33-40. doi: 10.1111/1574-6968.12069. Epub 2013 Jan 16.
2013 Mar degradation 4 1 GH3
PUL0589 Western Blot, enzyme activity assay, thin layer chromatography starch Streptococcus mutans 23930155
The malQ gene is essential for starch metabolism in Streptococcus mutans. J Oral Microbiol. 2013 Aug 6;5. pii: 21285. doi: 10.3402/jom.v5i0.21285. Print 2013.
2013 degradation 3 2 GT35, GH77
PUL0590 qRT-PCR, gene deletion mutant and growth assay, microarray maltose, maltodextrin Enterococcus faecium 23951303
A LacI-family regulator activates maltodextrin metabolism of Enterococcus faecium. PLoS One. 2013 Aug 7;8(8):e72285. doi: 10.1371/journal.pone.0072285. eCollection 2013.
2013 degradation 5 1 CBM34, GH13_20
PUL0591 growth assay, Northern Blot N-acetylglucosamine Bacillus subtilis 23667565
The use of amino sugars by Bacillus subtilis: presence of a unique operon for the catabolism of glucosamine. PLoS One. 2013 May 8;8(5):e63025. doi: 10.1371/journal.pone.0063025. Print 2013.
2013 degradation 4 1 CE9
PUL0592 qRT-PCR methylglucuronoarabinoxylan Paenibacillus sp. JDR-2 25063665
GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25.
2014 Oct degradation 8 3 GH67, GH10, GH43_12
PUL0593 Northern Blot maltose, maltotriose Thermoanaerobacterium thermosulfurigenes 8576036
Molecular analysis of the amy gene locus of Thermoanaerobacterium thermosulfurigenes EM1 encoding starch-degrading enzymes and a binding protein-dependent maltose transport system. J Bacteriol. 1996 Feb;178(4):1039-46. doi: 10.1128/jb.178.4.1039-1046.1996.
1996 Feb degradation 6 2 GH13_39, CBM34, GH13, CBM20, GH13_2, CBM20
PUL0594 qRT-PCR methylglucuronoarabinoxylan Paenibacillus sp. JDR-2 25063665
GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25.
2014 Oct degradation 4 1 GH51
PUL0595 enzyme activity assay, qPCR, crystallization starch [Eubacterium] rectale 25388295
Molecular details of a starch utilization pathway in the human gut symbiont Eubacterium rectale. Mol Microbiol. 2015 Jan;95(2):209-30. doi: 10.1111/mmi.12859. Epub 2014 Dec 19.
2015 Jan degradation 4 1 CBM26, GH13_41, CBM82, GH13, CBM41, CBM83
PUL0596 enzyme activity assay, qPCR, crystallization starch [Eubacterium] rectale 25388295
Molecular details of a starch utilization pathway in the human gut symbiont Eubacterium rectale. Mol Microbiol. 2015 Jan;95(2):209-30. doi: 10.1111/mmi.12859. Epub 2014 Dec 19.
2015 Jan degradation 4 1 GH13_36
PUL0597 enzyme activity assay, enzyme kinetic analysis arabinoxylan, arabino-xylooligosaccharide Corynebacterium alkanolyticum 25862223
Functional Characterization of Corynebacterium alkanolyticum beta-Xylosidase and Xyloside ABC Transporter in Corynebacterium glutamicum. Appl Environ Microbiol. 2015 Jun 15;81(12):4173-83. doi: 10.1128/AEM.00792-15. Epub 2015 Apr 10.
2015 Jun 15 degradation 5 1 GH3
PUL0598 liquid chromatography and mass spectrometry, differential gene expression xylose Clostridium cellulovorans 743B 26020016
Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015.
2015 degradation 4 1 GH95
PUL0599 liquid chromatography and mass spectrometry, differential gene expression xylan Clostridium cellulovorans 26020016
Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015.
2015 degradation 7 1 GH43, GH43_11
PUL0600 liquid chromatography and mass spectrometry, differential gene expression galactomannan Clostridium cellulovorans 26020016
Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015.
2015 degradation 12 2 GH130, GH130, GH2
PUL0601 liquid chromatography and mass spectrometry, differential gene expression pectin Clostridium cellulovorans 26020016
Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015.
2015 degradation 15 1 GH28, GH105
PUL0602 sequence homology analysis xylan Parageobacillus thermoglucosidasius 26442136
Complete genome sequence of Geobacillus thermoglucosidasius C56-YS93, a novel biomass degrader isolated from obsidian hot spring in Yellowstone National Park. Stand Genomic Sci. 2015 Oct 5;10:73. doi: 10.1186/s40793-015-0031-z. eCollection 2015.
2015 degradation 26 6 CBM22, GH10, GH39, GH67, GH10, GH52, CE4
PUL0603 microarray, qRT-PCR, culureing methods galactomannooligosaccharide Lactobacillus plantarum WCFS1 31703861
Transcriptional analysis of galactomannooligosaccharides utilization by Lactobacillus plantarum WCFS1. Food Microbiol. 2020 Apr;86:103336. doi: 10.1016/j.fm.2019.103336. Epub 2019 Sep 14.
2020 Apr degradation 3 1 GH1
PUL0604 microarray, qRT-PCR, culureing methods galactomannooligosaccharide Lactobacillus plantarum WCFS1 31703861
Transcriptional analysis of galactomannooligosaccharides utilization by Lactobacillus plantarum WCFS1. Food Microbiol. 2020 Apr;86:103336. doi: 10.1016/j.fm.2019.103336. Epub 2019 Sep 14.
2020 Apr degradation 6 2 GH32, GH13_31, GH13
PUL0605 RT-PCR, gene deletion mutant and growth assay glycogen Escherichia coli 33101261, 21029047
Glycogen Metabolism Impairment via Single Gene Mutation in the glgBXCAP Operon Alters the Survival Rate of Escherichia coli Under Various Environmental Stresses. Escherichia coli glycogen genes are organized in a single glgBXCAP transcriptional unit possessing an alternative suboperonic promoter within glgC that directs glgAP expression. Front Microbiol. 2020 Sep 25;11:588099. doi: 10.3389/fmicb.2020.588099. eCollection 2020. Biochem J. 2011 Jan 1;433(1):107-17. doi: 10.1042/BJ20101186.
2020,2011 Jan 1 biosynthesis 5 4 GT35, GT5, GH13, GH13_11, CBM48, GH77, GH13, GH13_9, CBM48
PUL0606 enzymy activity assay, clone and expression beta-galactooligosaccharide Bifidobacterium breve UCC2003 32385941
Biochemical analysis of cross-feeding behaviour between two common gut commensals when cultivated on plant-derived arabinogalactan. Microb Biotechnol. 2020 Nov;13(6):1733-1747. doi: 10.1111/1751-7915.13577. Epub 2020 May 9.
2020 Nov degradation 3 1 GH2
PUL0607 enzymy activity assay, clone and expression, liquid chromatography and mass spectrometry porphyran Wenyingzhuangia fucanilytica strain CZ1127 32520542
Characterization of a Novel Porphyranase Accommodating Methyl-galactoses at Its Subsites. J Agric Food Chem. 2020 Jul 1;68(26):7032-7039. doi: 10.1021/acs.jafc.0c02404. Epub 2020 Jun 22.
2020 Jul 1 degradation 22 8 GH2, CBM67, CBM51, GH141, PL0, GH105, GH154, GH16_11, GH16, GH117, GH16_11, GH16, GH16_14, GH29
PUL0608 enzymy activity assay, clone and expression, liquid chromatography and mass spectrometry, thin layer chromatography, MALDI-TOF/MS human milk oligosaccharide Roseburia hominis DSM 16839 32620774
Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways. Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x.
2020 Jul 3 degradation 9 2 GH136, GH112
PUL0609 enzymy activity assay, clone and expression, liquid chromatography and mass spectrometry, thin layer chromatography, MALDI-TOF/MS human milk oligosaccharide Roseburia inulinivorans DSM 16841 32620774
Butyrate producing colonic Clostridiales metabolise human milk oligosaccharides and cross feed on mucin via conserved pathways. Nat Commun. 2020 Jul 3;11(1):3285. doi: 10.1038/s41467-020-17075-x.
2020 Jul 3 degradation 11 4 GH112, GH95, GH95, GH136
PUL0610 enzyme activity assay, strcutural analysis xylan Rhodothermus marinus 31992772
Characterization and diversity of the complete set of GH family 3 enzymes from Rhodothermus marinus DSM 4253. Sci Rep. 2020 Jan 28;10(1):1329. doi: 10.1038/s41598-020-58015-5.
2020 Jan 28 degradation 14 6 GH43_15, CBM6, GH10, CBM4, GH10, GH67, GH3, GH3
PUL0611 liquid chromatography and mass spectrometry alpha-glucan Winogradskyella sp. isolate Bin3 32071270
Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture. mBio. 2020 Feb 18;11(1). pii: mBio.03261-19. doi: 10.1128/mBio.03261-19.
2020 Feb 18 degradation 14 7 GH97, GH13, GH13_19, GH13_38, GH31, GH13, GH65
PUL0612 liquid chromatography and mass spectrometry alpha-glucan Muricauda sp. isolate Bin2 32071270
Metagenomic and Metaproteomic Insights into Photoautotrophic and Heterotrophic Interactions in a Synechococcus Culture. mBio. 2020 Feb 18;11(1). pii: mBio.03261-19. doi: 10.1128/mBio.03261-19.
2020 Feb 18 degradation 10 2 GH65, GH13_38