| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0017 | qRT-PCR, Western Blot, isothermal titration calorimetry (ITC) | cellobiose | Ruminiclostridium cellulolyticum | <a href=https://pubmed.ncbi.nlm.nih.gov/29093754/>29093754</a> 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 |
| PUL0063 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 16 | 8 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH9 |
| PUL0064 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides cellulosilyticus | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 12 | 4 | GH2, GH3, GH31_4, GH5_4 |
| PUL0065 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides uniformis | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 13 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0066 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Bacteroides fluxus | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 13 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0067 | bicinchoninic acid (BCA) reducing-sugar assay, enzyme product analysis, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | xyloglucan | Dysgonomonas gadei | <a href=https://pubmed.ncbi.nlm.nih.gov/31420336/>31420336</a> Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity. Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15. |
2019 Oct 15 | degradation | 11 | 6 | GH2, GH3, GH31_4, GH43_12, CBM91, GH5_4, GH95 |
| PUL0118 | qRT-PCR, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | beta-glucan | Bacteroides uniformis | <a href=https://pubmed.ncbi.nlm.nih.gov/32265336/>32265336</a> 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 | GH158, GH16_3, GH3 |
| PUL0302 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay, high-performance anion-exchange chromatography | arabinan | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/29255254/>29255254</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/22686399/>22686399</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/21339299/>21339299</a> Dietary pectic glycans are degraded by coordinated enzyme pathways in human colonic Bacteroides. 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. Nat Microbiol. 2018 Feb;3(2):210-219. doi: 10.1038/s41564-017-0079-1. Epub 2017 Dec 18. 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. |
2018 Feb,2012 Aug,2011 Apr 29 | degradation | 22 | 6 | GH146, GH43_29, GH43_4, GH51_1, GH51_2 |
| PUL0304 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | galactan | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/29255254/>29255254</a> 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 (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | Bacteroides thetaiotaomicron | <a href=https://pubmed.ncbi.nlm.nih.gov/29255254/>29255254</a> 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 | CE12, CE8, CE8, GH105, GH28, PL1_2 |
| PUL0306 | RT-qPCR, isothermal titration calorimetry (ITC), enzyme activity assay, gene deletion mutant and growth assay | pectin | Bacteroides ovatus | <a href=https://pubmed.ncbi.nlm.nih.gov/29255254/>29255254</a> 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 | GH147, GH2, GH53 |
| PUL0309 | enzyme activity assay, substrate binding assay, isothermal titration calorimetry (ITC) | arabinan | Caldanaerobius polysaccharolyticus | <a href=https://pubmed.ncbi.nlm.nih.gov/28710263/>28710263</a> Enzymatic Mechanism for Arabinan Degradation and Transport in the Thermophilic Bacterium Caldanaerobius polysaccharolyticus. Appl Environ Microbiol. 2017 Aug 31;83(18):e00794-17. doi: 10.1128/AEM.00794-17. Print 2017 Sep 15. |
2017 Sep 15 | degradation | 12 | 6 | GH127, GH146, GH27, GH43_4, GH51_1 |
| PUL0343 | gene deletion mutant and growth assay, enzyme activity assay, Western Blot, isothermal titration calorimetry (ITC) | beta-glucan | uncultured bacterium | <a href=https://pubmed.ncbi.nlm.nih.gov/28091525/>28091525</a> 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_2 |
| PUL0646 | recombinant protein expression, crystallization, affinity gel electrophoresis, isothermal titration calorimetry (ITC) | beta-glucan | Bacteroides fluxus YIT 12057 | <a href=https://pubmed.ncbi.nlm.nih.gov/33587952/>33587952</a> 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 | GH158, GH3 |
| PUL0714 | clone and expression, crystallization, isothermal titration calorimetry (ITC), thin-layer chromatography, Western Blot, gene mutant | starch | Bacteroides ovatus strain ATCC 8483 | <a href=https://pubmed.ncbi.nlm.nih.gov/37500984/>37500984</a> BoGH13A(Sus) from Bacteroides ovatus represents a novel alpha-amylase used for Bacteroides starch breakdown in the human gut. Cell Mol Life Sci. 2023 Jul 28;80(8):232. doi: 10.1007/s00018-023-04812-w. |
2023 Jul 28 | degradation | 8 | 3 | GH13_10, GH13_46, GH97 |
| PUL0722 | RNA-seq, mass spectrometry, SDS-PAGE, isothermal titration calorimetry (ITC), high-performance anion-exchange chromatography, enzyme kinetic analysis, thin-layer chromatography | xylan | Polaribacter sp. Q13 | <a href=https://pubmed.ncbi.nlm.nih.gov/38169280/>38169280</a> The catabolic specialization of the marine bacterium Polaribacter sp. Q13 to red algal beta1,3/1,4-mixed-linkage xylan. Appl Environ Microbiol. 2024 Jan 24;90(1):e0170423. doi: 10.1128/aem.01704-23. Epub 2024 Jan 3. |
2024 Jan 24 | degradation | 30 | 9 | CBM4, CBM4, GH10, GH26, GH3, GH43_1, GH43_12, CBM91 |
| PUL0742 | gene deletion and growth assay, recombinant protein expression, crystallization, isothermal titration calorimetry (ITC), RNA-seq, ion chromatography, HPLC, growth assay | human milk oligosaccharide | Bifidobacterium longum subsp. infantis ATCC 15697 | <a href=https://pubmed.ncbi.nlm.nih.gov/32985563/>32985563</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/31489370/>31489370</a> Strain-specific strategies of 2'-fucosyllactose, 3-fucosyllactose, and difucosyllactose assimilation by Bifidobacterium longum subsp. infantis Bi-26 and ATCC 15697. Evolutionary adaptation in fucosyllactose uptake systems supports bifidobacteria-infant symbiosis. Sci Rep. 2020 Sep 28;10(1):15919. doi: 10.1038/s41598-020-72792-z. Sci Adv. 2019 Aug 28;5(8):eaaw7696. doi: 10.1126/sciadv.aaw7696. eCollection 2019 Aug. |
2020 Sep 28,2019 Aug | degradation | 5 | 1 | GH151 |
| PUL0743 | gene mutant, SDS-PAGE, Western Blot, recombinant protein expression, thermal shift assay (TSA), isothermal titration calorimetry (ITC), HPAEC-PAD, RT-qPCR, fluorescence measurements | xylan | Ruminiclostridium cellulolyticum H10 | <a href=https://pubmed.ncbi.nlm.nih.gov/36403068/>36403068</a>, <a href=https://pubmed.ncbi.nlm.nih.gov/38789996/>38789996</a> Selfish uptake versus extracellular arabinoxylan degradation in the primary degrader Ruminiclostridium cellulolyticum, a new string to its bow. Intracellular removal of acetyl, feruloyl and p-coumaroyl decorations on arabinoxylo-oligosaccharides imported from lignocellulosic biomass degradation by Ruminiclostridium cellulolyticum. Biotechnol Biofuels Bioprod. 2022 Nov 19;15(1):127. doi: 10.1186/s13068-022-02225-8. Microb Cell Fact. 2024 May 24;23(1):151. doi: 10.1186/s12934-024-02423-z. |
2022 Nov 19,2024 May 24 | degradation | 13 | 6 | CE1, CE20, CE20, GH39, GH43_10, CBM91, GH51_1, GH8 |
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