| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0003 | RT-PCR | xylan | Bacillus subtilis | 26559526 Metabolic potential of Bacillus subtilis 168 for the direct conversion of xylans to fermentation products. Appl Microbiol Biotechnol. 2016 Feb;100(3):1501-1510. doi: 10.1007/s00253-015-7124-x. Epub 2015 Nov 12. |
2016 Feb | degradation | 2 | 2 | GH30, GH30_8, GH43_16, CBM6 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| 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 |
| PUL0386 | ion trap liquid chromatography, mass spectrometry, target decoy database analysis, high performance anion exchange chromatography | hemicellulose | Ruminiclostridium cellulolyticum | 20013800 Modulation of cellulosome composition in Clostridium cellulolyticum: adaptation to the polysaccharide environment revealed by proteomic and carbohydrate-active enzyme analyses. Proteomics. 2010 Feb;10(3):541-54. doi: 10.1002/pmic.200900311. |
2010 Feb | degradation | 11 | 11 | GH43, CBM6, GH43_16, GH10, CBM6, GH43_29, GH43, CBM6, CE1, CBM6, GH43_10, CBM6, GH62, CBM6, GH43_29, GH43, CBM6, GH146, CBM22, GH27, CBM6, GH59, CBM6, GH2, CBM6 |
| 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 |
| PUL0442 | mass spectrometry, high performance anion exchange chromatography | glucomannan, galactomannan, glucose | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 9 | 3 | CBM5, GH18, GH18, GH64, CBM6, GH16, CBM6 |
| PUL0443 | mass spectrometry, high performance anion exchange chromatography | glucomannan, galactomannan, glucose | Chitinophaga pinensis | 28069559 Proteomic insights into mannan degradation and protein secretion by the forest floor bacterium Chitinophaga pinensis. J Proteomics. 2017 Mar 6;156:63-74. doi: 10.1016/j.jprot.2017.01.003. Epub 2017 Jan 6. |
2017 Mar 6 | degradation | 9 | 3 | GH16, CBM6 |
| 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 |
| 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 |
| PUL0545 | RNA-Seq | arabinan | Bacteroides cellulosilyticus | 23976882 Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol. 2013;11(8):e1001637. doi: 10.1371/journal.pbio.1001637. Epub 2013 Aug 20. |
2013 | degradation | 10 | 5 | GH43_2, CBM6, GH43, GH3, GH43_17, GH9, GH43_7, CBM13, CE1 |
| PUL0553 | RT-PCR, qPCR | xylan | Bacteroides xylanisolvens | 27142817 Xylan degradation by the human gut Bacteroides xylanisolvens XB1A(T) involves two distinct gene clusters that are linked at the transcriptional level. BMC Genomics. 2016 May 4;17:326. doi: 10.1186/s12864-016-2680-8. |
2016 May 4 | degradation | 21 | 13 | GH43_10, GH43, CBM6, GH3, GH43, GH43_12, GH31, GH97, CBM66, CBM6, GH43, GH43_29, GH43, GH43_12, CBM4, CBM0, GH10, GH5_21, CE1, CE6, CBM6, GH43_29, GH95, GH115 |
| 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 |
| PUL0614 | RNA-Seq | pectin | Prevotella sp. PINT | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 3 | 1 | CBM6, PL1, CE8, PL1_2 |
| PUL0621 | RNA-Seq | pectin | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 8 | 4 | 3.2.1.37, GH3, CBM6, GH57, GT4, GH133 |
| PUL0622 | RNA-Seq | xylan | Prevotella sp. PROD | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 15 | 5 | CBM35, CBM2, PL11_1, PL11, GH3, 3.2.1.55, CBM6, 3.2.1.37, GH43_7, CBM13, GH43, PL11_1, CBM35, CE12, PL11, CBM2, GH2 |
| PUL0623 | RNA-Seq | pectin | Prevotella sp. PMUR | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 15 | 1 | CBM6, GH3, 3.2.1.37 |
| PUL0625 | RNA-Seq | xylan | Prevotella sp. PMUR | 33113351 Distinct Polysaccharide Utilization Determines Interspecies Competition between Intestinal Prevotella spp. Cell Host Microbe. 2020 Dec 9;28(6):838-852.e6. doi: 10.1016/j.chom.2020.09.012. Epub 2020 Oct 27. |
2020 Dec 9 | degradation | 18 | 9 | GH43_12, GH43, GH115, GH43, GH43_10, GH97, CBM6, GH43_29, GH43, CBM22, CE1, CBM48, CBM51, CBM32, GH95, CBM13, GH115, GH30_8 |
| 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 |
| PUL0646 | recombinant protein expression, crystallization, affinity gel electrophoresis, isothermal titration calorimetry | beta-glucan | Bacteroides fluxus YIT 12057 | 33587952 Distinct protein architectures mediate species-specific beta-glucan binding and metabolism in the human gut microbiota. J Biol Chem. 2021 Jan-Jun;296:100415. doi: 10.1016/j.jbc.2021.100415. Epub 2021 Feb 13. |
2021 Jan-Jun | degradation | 6 | 2 | GH3, CBM6, GH158 |
| PUL0648 | high performance anion exchange chromatography, substrate binding assay, thin layer chromatography, NMR, mass spectrometry, crystallization | glucuronoarabinoxylan | Dysgonomonas mossii DSM 22836 | 33667545 A polysaccharide utilization locus from the gut bacterium Dysgonomonas mossii encodes functionally distinct carbohydrate esterases. J Biol Chem. 2021 Jan-Jun;296:100500. doi: 10.1016/j.jbc.2021.100500. Epub 2021 Mar 2. |
2021 Jan-Jun | degradation | 37 | 20 | CBM0, 3.2.1.8, CBM4, GH10, GH43_12, GH43, GH43, GH43_1, GH10, GH146, CBM48, CE1, CBM6, CBM36, GH8, 3.2.1.156, CE6, CBM2, GH43_29, GH43, CBM22, CBM42, CBM66, CBM6, CBM6, GH43_29, GH43, GH97, GH31, GH51, CBM2, GH43_29, GH43, CBM22, CBM42, CBM6, CBM48, CE1, GH10, GH43_10, GH43, GH115, GH10, GH43, GH43_1, GH67 |
| 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 |
| PUL0654 | sequence homology analysis | alginate | Maribacter dokdonensis 62-1 | 33912144 CAZymes in Maribacter dokdonensis 62-1 From the Patagonian Shelf: Genomics and Physiology Compared to Related Flavobacteria and a Co-occurring Alteromonas Strain. Front Microbiol. 2021 Apr 12;12:628055. doi: 10.3389/fmicb.2021.628055. eCollection 2021. |
2021 | degradation | 38 | 8 | GH144, GH144, CE0, CE1, CBM6, GH3, PL6_1, PL6, PL12, PL6_1, PL6, PL17, PL17_2 |
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