| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| 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 |
| 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 |
| 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):e01279-17. 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):e01279-17. doi: 10.1128/AEM.01279-17. Print 2017 Dec 1. |
2017 Dec 1 | degradation | 5 | 1 | GH1 |
| 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 |
| 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_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 |
| 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 |
| 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 |
| 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 |
| 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):e00109-19. doi: 10.1128/JB.00109-19. Print 2019 Aug 1. |
2019 Aug 1 | degradation | 6 | 2 | GH4 |
| 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 |
| 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 |
| 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 |
| 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, GT2 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| PUL0244 | gene deletion mutant and growth assay, complementation study, substrate 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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):e00038-17. doi: 10.1128/AEM.00038-17. Print 2017 Jul 1. Appl Environ Microbiol. 2020 Sep 1;86(18):e01147-20. 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 |
| 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 |
| 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(1):170. doi: 10.1186/1471-2164-15-170. |
2014 Mar 1 | degradation | 13 | 1 | CBM48, GH13_11 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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(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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 | 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.- |
| 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 |
| 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 |
| PUL0665 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 7 | 1 | GH30 |
| PUL0666 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 5 | 4 | GH35, GH43, GH51 |
| PUL0667 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 4 | 0 | NA |
| PUL0668 | UHPLC-MS, RNA-seq, RT-qPCR | pectin | Bacteroides thetaiotaomicron VPI-5482 | 34420703 Discrete genetic loci in human gut Bacteroides thetaiotaomicron confer pectin metabolism. Carbohydr Polym. 2021 Nov 15;272:118534. doi: 10.1016/j.carbpol.2021.118534. Epub 2021 Aug 6. |
2021 Nov 15 | degradation | 17 | 8 | GH43, GH28, PL9, PL26, CE12, GH105 |
| 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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