| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0017 | qRT-PCR, Western Blot, isothermal titration calorimetry | cellobiose | Ruminiclostridium cellulolyticum | 29093754 A seven-gene cluster in Ruminiclostridium cellulolyticum is essential for signalization, uptake and catabolism of the degradation products of cellulose hydrolysis. Biotechnol Biofuels. 2017 Oct 30;10:250. doi: 10.1186/s13068-017-0933-7. eCollection 2017. |
2017 | degradation | 9 | 1 | GH94 |
| PUL0044 | qRT-PCR, enzyme activity assay | arabinoxylan | Bacteroides ovatus | 26112186, 32266006 Glycan complexity dictates microbial resource allocation in the large intestine. Multimodular fused acetyl-feruloyl esterases from soil and gut Bacteroidetes improve xylanase depolymerization of recalcitrant biomass. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481. Biotechnol Biofuels. 2020 Mar 31;13:60. doi: 10.1186/s13068-020-01698-9. eCollection 2020. |
2015 Jun 26,2020 | degradation | 33 | 16 | GH43, GH43_10, GH3, GH43_12, GH43, GH31, GH97, CBM6, GH43, GH43_29, GH43_12, GH43, GH30_8, CBM35, GH98, GH115, CE6, CE1, CBM6, GH43, GH43_29, GH95, GH30, GH115 |
| PUL0045 | qRT-PCR | arabinoxylan | Bacteroides ovatus | 26112186 Glycan complexity dictates microbial resource allocation in the large intestine. Nat Commun. 2015 Jun 26;6:7481. doi: 10.1038/ncomms8481. |
2015 Jun 26 | degradation | 11 | 5 | GH67, GH43_1, GH43, GH10, CBM4, GH10 |
| 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 |
| PUL0118 | qRT-PCR, affinity gel electrophoresis, isothermal titration calorimetry | laminarin, beta-glucan | Bacteroides uniformis | 32265336 Synergy between Cell Surface Glycosidases and Glycan-Binding Proteins Dictates the Utilization of Specific Beta(1,3)-Glucans by Human Gut Bacteroides. mBio. 2020 Apr 7;11(2):e00095-20. doi: 10.1128/mBio.00095-20. |
2020 Apr 7 | degradation | 7 | 3 | CBM6, GH3, GH158, GH16 |
| 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 |
| PUL0171 | qRT-PCR, RNA-Seq | N-glycan | Bacteroides fragilis | 27353652 cis-Encoded Small RNAs, a Conserved Mechanism for Repression of Polysaccharide Utilization in Bacteroides. J Bacteriol. 2016 Aug 25;198(18):2410-8. doi: 10.1128/JB.00381-16. Print 2016 Sep 15. |
2016 Sep 15 | degradation | 7 | 1 | GH18 |
| 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 |
| PUL0212 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 8 | 1 | GH2 |
| PUL0213 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 4 | 1 | GH2 |
| PUL0214 | qRT-PCR | galactooligosaccharide | Bifidobacterium adolescentis | 25483279 Diverse galactooligosaccharides consumption by bifidobacteria: implications of beta-galactosidase--LacS operon. Biosci Biotechnol Biochem. 2015;79(4):664-72. doi: 10.1080/09168451.2014.987204. Epub 2014 Dec 6. |
2015 | degradation | 9 | 2 | GH42, GH35 |
| PUL0224 | RT-PCR, qRT-PCR | cellulose | Ruminiclostridium cellulolyticum | 23418511 A two-component system (XydS/R) controls the expression of genes encoding CBM6-containing proteins in response to straw in Clostridium cellulolyticum. PLoS One. 2013;8(2):e56063. doi: 10.1371/journal.pone.0056063. Epub 2013 Feb 13. |
2013 | degradation | 16 | 14 | GH43_16, GH43, CBM6, GH10, CBM6, GH43, GH43_29, CBM6, CBM6, CE1, GH43_10, CBM6, GH62, CBM6, GH43, GH43_29, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6, GH62, CBM6, CE6, CBM32, GH95, CBM6, GH30_8, CBM6 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| PUL0592 | qRT-PCR | methylglucuronoarabinoxylan | Paenibacillus sp. JDR-2 | 25063665 GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25. |
2014 Oct | degradation | 8 | 3 | GH67, GH10, GH43_12 |
| PUL0594 | qRT-PCR | methylglucuronoarabinoxylan | Paenibacillus sp. JDR-2 | 25063665 GH51 arabinofuranosidase and its role in the methylglucuronoarabinoxylan utilization system in Paenibacillus sp. strain JDR-2. Appl Environ Microbiol. 2014 Oct;80(19):6114-25. doi: 10.1128/AEM.01684-14. Epub 2014 Jul 25. |
2014 Oct | degradation | 4 | 1 | GH51 |
| 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 |
| 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 |
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