| PULID | Characterization Method(s) | Substrate | Organism | Publication | Publish Date | Type | Num Genes | Num CAZymes | CazyFamily |
|---|---|---|---|---|---|---|---|---|---|
| PUL0014 | sequence homology analysis, growth assay | pectin | Geobacillus thermodenitrificans | 28900693 Complete Genome Sequence of Geobacillus thermodenitrificans T12, A Potential Host for Biotechnological Applications. Curr Microbiol. 2018 Jan;75(1):49-56. doi: 10.1007/s00284-017-1349-0. Epub 2017 Sep 12. |
2018 Jan | degradation | 9 | 2 | PL1_6, PL1, GH105 |
| PUL0134 | sequence homology analysis | pectin | Gramella flava | 30341080 Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2019 Jan 1 | degradation | 29 | 10 | CE8, PL9_1, GH28, GH105, GH43_10, GH28, PL9_1, CE12, CE8, CE10, CE12, PL10_1 |
| PUL0135 | enzyme activity assay, substrate binding assay | pectin | Pseudoalteromonas sp. | 30341080 Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2019 Jan 1 | degradation | 21 | 8 | CE12, CE4, GH28, GH105, GH105, GH43, GH43_10, CE8, PL1_2 |
| PUL0136 | sequence homology analysis | pectin | Pseudoalteromonas haloplanktis | 30341080 Biochemical Reconstruction of a Metabolic Pathway from a Marine Bacterium Reveals Its Mechanism of Pectin Depolymerization. Appl Environ Microbiol. 2018 Dec 13;85(1):e02114-18. doi: 10.1128/AEM.02114-18. Print 2019 Jan 1. |
2019 Jan 1 | degradation | 26 | 6 | PL1, PL1_5, CE8, PL1, PL1_2, GH105, GH105, GH28 |
| PUL0191 | RNA-Seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 11 | 5 | GH105, CE8, CE8, CE12, CE4, PL1_2, PL1_2 |
| PUL0192 | RNA-Seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 27 | 12 | GH106, GH28, GH28, CE12, GH2, GH43_18, GH43_34, GH43, CBM32, GH42, GH28, PL11, PL11_1, PL26, CE12, GH105, PL11_1, GH105 |
| PUL0193 | RNA-Seq, RT-PCR, qPCR | pectin | Bacteroides xylanisolvens | 26920945 Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis. BMC Genomics. 2016 Feb 27;17:147. doi: 10.1186/s12864-016-2472-1. |
2016 Feb 27 | degradation | 30 | 10 | GH2, PL11_1, PL11, GH28, GH117, PL11_1, PL11, GH28, GH105, GH28 |
| PUL0221 | fosmid library screen | cellulose | uncultured bacterium Contig1529 | 24223817 Metagenomic insights into the carbohydrate-active enzymes carried by the microorganisms adhering to solid digesta in the rumen of cows. PLoS One. 2013 Nov 5;8(11):e78507. doi: 10.1371/journal.pone.0078507. eCollection 2013. |
2013 | degradation | 10 | 5 | GH35, GH105, GH3, GH5_4 |
| PUL0225 | RT-PCR | porphyran | Bacteroides plebeius | 23150581 Bacteria of the human gut microbiome catabolize red seaweed glycans with carbohydrate-active enzyme updates from extrinsic microbes. Proc Natl Acad Sci U S A. 2012 Nov 27;109(48):19786-91. doi: 10.1073/pnas.1211002109. Epub 2012 Nov 12. |
2012 Nov 27 | degradation | 36 | 12 | GH16, GH117, GH2, GH2, GH50, GH154, GH105, GH16, GH86, GH86, GH29, GH16, GH2 |
| 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 |
| 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 |
| PUL0330 | fosmid library screen, enzyme activity assay, thin layer chromatography | pectin | Gramella flava | 28261179 Characterization of Potential Polysaccharide Utilization Systems in the Marine Bacteroidetes Gramella Flava JLT2011 Using a Multi-Omics Approach. Front Microbiol. 2017 Feb 14;8:220. doi: 10.3389/fmicb.2017.00220. eCollection 2017. |
2017 | degradation | 28 | 11 | CE8, PL9_1, GH28, GH105, GH43_10, GH28, PL9_1, CE12, CE8, CE10, CE12, PL10_1 |
| PUL0404 | RNA-Seq | pectin | Alteromonas macleodii | 30116038 Biphasic cellular adaptations and ecological implications of Alteromonas macleodii degrading a mixture of algal polysaccharides. ISME J. 2019 Jan;13(1):92-103. doi: 10.1038/s41396-018-0252-4. Epub 2018 Aug 16. |
2019 Jan | degradation | 18 | 4 | CE12, GH105, GH28, CE8 |
| 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 |
| PUL0483 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 12 | 5 | GH2, CE12, CE4, GH28, GH117, GH106, GH105 |
| PUL0484 | growth assay | pectin | Flavobacterium johnsoniae | 19717629 Novel features of the polysaccharide-digesting gliding bacterium Flavobacterium johnsoniae as revealed by genome sequence analysis. Appl Environ Microbiol. 2009 Nov;75(21):6864-75. doi: 10.1128/AEM.01495-09. Epub 2009 Aug 28. |
2009 Nov | degradation | 12 | 8 | CE12, GH28, PL10, CE8, PL10_1, GH43_10, GH43, GH105, GH105, GH105, GH28 |
| 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 |
| PUL0539 | RNA-Seq | fucose, galacturonic acid, rhamnose | 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 | 16 | 7 | PL1_2, CE8, PL1, GH28, GH105, GH28, PL11, GH106, GH105 |
| 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 |
| 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 |
| PUL0601 | liquid chromatography and mass spectrometry, differential gene expression | pectin | Clostridium cellulovorans | 26020016 Elucidation of the recognition mechanisms for hemicellulose and pectin in Clostridium cellulovorans using intracellular quantitative proteome analysis. AMB Express. 2015 May 23;5:29. doi: 10.1186/s13568-015-0115-6. eCollection 2015. |
2015 | degradation | 15 | 1 | GH28, GH105 |
| 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 |
| 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 |
| 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 |
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