| 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 |
| 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 |
| 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 |
| 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 |
| 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, substrate binding assay | kestose | uncultured bacterium | 31915220 Harvesting of Prebiotic Fructooligosaccharides by Nonbeneficial Human Gut Bacteria. mSphere. 2020 Jan 8;5(1):e00771-19. doi: 10.1128/mSphere.00771-19. |
2020 Jan 8 | degradation | 12 | 1 | GH32 |
| 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 |
| 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 | galactomannan | 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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):e00109-19. 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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):e02582-18. 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 | beta-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 |
| PUL0132 | enzyme activity assay | hemicellulose | Zobellia galactanivorans | 30341165 The laterally acquired GH5 ZgEngA(GH5_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 |
| PUL0135 | enzyme activity assay, substrate 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):e02114-18. 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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):e00661-20. 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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):e01651-20. 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):e00794-17. doi: 10.1128/AEM.00794-17. Print 2017 Sep 15. |
2017 Sep 15 | degradation | 12 | 6 | GH43_4, GH43, GH127, GH51, GH27, GH51, GH146 |
| 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 |
| 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 |
| 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 |
| 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):e00740-17. 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | beta-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 |
| 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 |
| 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 |
| PUL0445 | recombinant protein expression, 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 |
| 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 |
| 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):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):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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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. doi: 10.3402/jom.v5i0.21285. Print 2013. |
2013 | degradation | 3 | 2 | GT35, GH77 |
| 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 |
| PUL0606 | enzyme 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 | 3.2.1.23, GH2 |
| PUL0607 | enzyme 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, 3.2.1.178, GH117, GH16_11, GH16, GH16_14, GH29 |
| PUL0608 | enzyme 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 | 3.2.1.140, GH136, 2.4.1.211, GH112 |
| PUL0609 | enzyme 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, 2.4.1.211, 3.2.1.63, GH95, 3.2.1.63, GH95, GH136, 3.2.1.- |
| 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, 3.2.1.8, GH10, GH67, GH3, GH3 |
| PUL0630 | enzyme activity assay, affinity gel electrophoresis | xylan | termite gut metagenome | 33187992 Multimodularity of a GH10 Xylanase Found in the Termite Gut Metagenome. Appl Environ Microbiol. 2021 Jan 15;87(3):e01714-20. doi: 10.1128/AEM.01714-20. Print 2021 Jan 15. |
2021 Jan 15 | degradation | 9 | 5 | GH10, CBM4, CBM0, 3.2.1.8, GH115, GH11, CBM6, CBM36, CBM0, 3.2.1.8, GH10, CBM9, CBM22, GH43, GH43_1 |
| PUL0643 | enzyme activity assay, liquid chromatography, high performance anion exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides intestinalis DSM 17393 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 12 | 7 | CBM48, CE1, GH43, GH43_7, CBM13, CBM48, CE1, CE6, CBM48, CE1, GH43_17, CBM6, GH3, GH43, CBM6, GH43_2 |
| PUL0644 | enzyme activity assay, liquid chromatography, high performance anion exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides cellulosilyticus DSM 14838 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 10 | 6 | GH43, GH43_2, CBM6, GH43_17, GH10, CBM48, CE1, CE1, GH43, CBM13, GH43_7, CBM48, CE1 |
| PUL0645 | enzyme activity assay, liquid chromatography, high performance anion exchange chromatography, qRT-PCR, crystallization | arabinoxylan | Bacteroides oleiciplenus YIT 12058 | 33469030 Degradation of complex arabinoxylans by human colonic Bacteroidetes. Nat Commun. 2021 Jan 19;12(1):459. doi: 10.1038/s41467-020-20737-5. |
2021 Jan 19 | degradation | 10 | 5 | GH43, GH43_2, CBM6, GH3, CBM6, GH43_17, GH43_7, GH43, CBM13, CE1, CBM48 |
| PUL0650 | enzyme activity assay, high performance anion exchange chromatography, recombinant protein expression, NMR, gene deletion mutant and growth assay | arabinogalactan | Bifidobacterium longum JCM 7052 | 33674431 Novel 3-O-alpha-d-Galactosyl-alpha-l-Arabinofuranosidase for the Assimilation of Gum Arabic Arabinogalactan Protein in Bifidobacterium longum subsp. longum. Appl Environ Microbiol. 2021 Apr 27;87(10):e02690-20. doi: 10.1128/AEM.02690-20. Print 2021 Apr 27. |
2021 Apr 27 | degradation | 7 | 2 | GH36, GH39, CBM35 |
| PUL0651 | enzyme activity assay, NMR | agar | Gilvimarinus chinensis DSM 19667 | 33691998 Agarase cocktail from agar polysaccharide utilization loci converts homogenized Gelidium amansii into neoagarooligosaccharides. Food Chem. 2021 Aug 1;352:128685. doi: 10.1016/j.foodchem.2020.128685. Epub 2020 Nov 19. |
2021 Aug 1 | degradation | 63 | 14 | CBM6, GH16_16, GH16, GH50, CBM6, CBM13, CBM6, GH16_16, GH16, GH50, GH117, GH16_3, GH16, GH2, GH50, GH127, GH167, CBM2, CBM6, GH86, 3.2.1.81, GH50, 3.2.1.81, GH86 |
| PUL0652 | RNA-Seq, enzyme activity assay, thin layer chromatography, liquid chromatography, mass spectrometry | agar | Colwellia echini A3 | 33811026 A Novel Auxiliary Agarolytic Pathway Expands Metabolic Versatility in the Agar-Degrading Marine Bacterium Colwellia echini A3(T). Appl Environ Microbiol. 2021 May 26;87(12):e0023021. doi: 10.1128/AEM.00230-21. Epub 2021 May 26. |
2021 May 26 | degradation | 54 | 10 | CBM35, GH2, CBM6, GH96, CBM6, GH96, GH50, GH50, GH50, GH29, CBM13, GH50, GH86, GH117 |
| PUL0653 | gene deletion mutant and growth assay, complementation study, enzyme activity assay, RNA-Seq, electrophoretic mobility shift assay | agar | Streptomyces coelicolor A3(2) | 33889146 LacI-Family Transcriptional Regulator DagR Acts as a Repressor of the Agarolytic Pathway Genes in Streptomyces coelicolor A3(2). Front Microbiol. 2021 Apr 6;12:658657. doi: 10.3389/fmicb.2021.658657. eCollection 2021. |
2021 | degradation | 17 | 4 | GH16_16, 3.2.1.81, CBM67, GH2, GH117, 3.2.1.81, GH50 |
| PUL0656 | gene deletion mutant and growth assay, complementation study, clone and expression, isothermal titration calorimetry | exopolysaccharide | Bacillus cereus ATCC 10987 | 32236137 Discovery and characterization of a Gram-positive Pel polysaccharide biosynthetic gene cluster. PLoS Pathog. 2020 Apr 1;16(4):e1008281. doi: 10.1371/journal.ppat.1008281. eCollection 2020 Apr. |
2020 Apr | biosynthesis | 6 | 2 | GH0, GH166, GT4 |
| PUL0662 | thin layer chromatography, liquid chromatography and mass spectrometry, qPCR, clone and expression | β-mannan | Phocaeicola dorei DSM 17855 | 34339781 BdPUL12 depolymerizes beta-mannan-like glycans into mannooligosaccharides and mannose, which serve as carbon sources for Bacteroides dorei and gut probiotics. Int J Biol Macromol. 2021 Sep 30;187:664-674. doi: 10.1016/j.ijbiomac.2021.07.172. Epub 2021 Jul 31. |
2021 Sep 30 | degradation | 9 | 4 | GH5_7, CE7, GH26, GH130 |
| PUL0663 | thin layer chromatography, clone and expression, recombinant protein expression | arabinogalactan protein | Bacteroides plebeius DSM17135 | 34340552 Sulfation of Arabinogalactan Proteins Confers Privileged Nutrient Status to Bacteroides plebeius. mBio. 2021 Aug 31;12(4):e0136821. doi: 10.1128/mBio.01368-21. Epub 2021 Aug 3. |
2021 Aug 31 | degradation | 7 | 4 | GH145, GH43_24, GH43_17, GH105 |
| PUL0664 | thin layer chromatography, clone and expression, recombinant protein expression | arabinogalactan protein | Bacteroides plebeius DSM17135 | 34340552 Sulfation of Arabinogalactan Proteins Confers Privileged Nutrient Status to Bacteroides plebeius. mBio. 2021 Aug 31;12(4):e0136821. doi: 10.1128/mBio.01368-21. Epub 2021 Aug 3. |
2021 Aug 31 | degradation | 17 | 8 | GH49, GH2, GH36, GH27, GH28, GH43, GH43, GH2 |
| PUL0671 | gene deletion mutant and growth assay, enzyme activity assay, Western blot, qPCR | cellulose | Cytophaga hutchinsonii ATCC 33406 | 34731049 A Type IX Secretion System Substrate Involved in Crystalline Cellulose Degradation by Affecting Crucial Cellulose Binding Proteins in Cytophaga hutchinsonii. Appl Environ Microbiol. 2022 Jan 25;88(2):e0183721. doi: 10.1128/AEM.01837-21. Epub 2021 Nov 3. |
2022 Jan 25 | degradation | 6 | 0 | NA |
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