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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0065

PubMed

31420336, Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.

Characterization method

bicinchoninic acid (BCA) reducing-sugar assay,enzymatic product analysis,affinity gel electrophoresis,isothermal titration calorimetry

Genomic accession number

DS362223.1

Nucelotide position range

43453-71885

Substrate

xyloglucan

Loci

BACUNI_00315-BACUNI_00326

Species

Bacteroides uniformis/820

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BACUNI_00315 EDO56028.1 0 - 3195 (+) DS362223.1:43453-46648 -
- BACUNI_00316 EDO56029.1 3208 - 4888 (+) DS362223.1:46661-48341 -
- BACUNI_00317 EDO56030.1 4929 - 6900 (+) DS362223.1:48382-50353 -
- BACUNI_00318 EDO56031.1 6908 - 9530 (+) DS362223.1:50361-52983 -
- BACUNI_00319 EDO56032.1 9924 - 11496 (-) DS362223.1:53377-54949 -
- BACUNI_00320 EDO56033.1 11542 - 11722 (+) DS362223.1:54995-55175 -
- BACUNI_00321 EDO56034.1 11746 - 13528 (+) DS362223.1:55199-56981 -
- BACUNI_00322 EDO56035.1 13748 - 17831 (+) DS362223.1:57201-61284 -
- BACUNI_00323 EDO56036.1 17969 - 20852 (+) DS362223.1:61422-64305 3.2.1.-
- BACUNI_00324 EDO56037.1 20993 - 23513 (+) DS362223.1:64446-66966 -
- BACUNI_00325 EDO56038.1 23560 - 25774 (+) DS362223.1:67013-69227 -
- BACUNI_00327 EDO56040.1 25848 - 25980 (-) DS362223.1:69301-69433 -
- BACUNI_00326 EDO56039.1 25970 - 28433 (+) DS362223.1:69423-71886 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 3195 (+) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 3209 - 4888 (+) TC: gnl|TC-DB|F9ZC67|8.A.46.1.2 Yes
- 4930 - 6900 (+) other Yes
- 6909 - 9530 (+) other Yes
- 9925 - 11496 (-) CAZyme: GH43_12|GH43 Yes
- 11543 - 11722 (+) other Yes
- 11747 - 13528 (+) CAZyme: GH5_4|GH5 Yes
- 13749 - 17831 (+) TF: DBD-Pfam|HTH_AraC,DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 Yes
- 17970 - 20852 (+) CAZyme: GH31 Yes
- 20994 - 23513 (+) CAZyme: GH2 Yes
- 23561 - 25774 (+) CAZyme: GH3 Yes
- 25849 - 25980 (-) other Yes
- 25971 - 28433 (+) CAZyme: GH95 Yes

PUL ID

PUL0065

PubMed

31420336, Appl Environ Microbiol. 2019 Oct 1;85(20):e01491-19. doi: 10.1128/AEM.01491-19. Print 2019 Oct 15.

Title

Adaptation of Syntenic Xyloglucan Utilization Loci of Human Gut Bacteroidetes to Polysaccharide Side Chain Diversity.

Author

Dejean G, Tauzin AS, Bennett SW, Creagh AL, Brumer H

Abstract

Genome sequencing has revealed substantial variation in the predicted abilities of individual species within animal gut microbiota to metabolize the complex carbohydrates comprising dietary fiber. At the same time, a currently limited body of functional studies precludes a richer understanding of how dietary glycan structures affect the gut microbiota composition and community dynamics. Here, using biochemical and biophysical techniques, we identified and characterized differences among recombinant proteins from syntenic xyloglucan utilization loci (XyGUL) of three Bacteroides and one Dysgonomonas species from the human gut, which drive substrate specificity and access to distinct polysaccharide side chains. Enzymology of four syntenic glycoside hydrolase family 5 subfamily 4 (GH5_4) endo-xyloglucanases revealed surprising differences in xyloglucan (XyG) backbone cleavage specificity, including the ability of some homologs to hydrolyze congested branched positions. Further, differences in the complement of GH43 alpha-l-arabinofuranosidases and GH95 alpha-l-fucosidases among syntenic XyGUL confer distinct abilities to fully saccharify plant species-specific arabinogalactoxyloglucan and/or fucogalactoxyloglucan. Finally, characterization of highly sequence-divergent cell surface glycan-binding proteins (SGBPs) across syntenic XyGUL revealed a novel group of XyG oligosaccharide-specific SGBPs encoded within select BacteroidesIMPORTANCE The catabolism of complex carbohydrates that otherwise escape the endogenous digestive enzymes of humans and other animals drives the composition and function of the gut microbiota. Thus, detailed molecular characterization of dietary glycan utilization systems is essential both to understand the ecology of these complex communities and to manipulate their compositions, e.g., to benefit human health. Our research reveals new insight into how ubiquitous members of the human gut microbiota have evolved a set of microheterogeneous gene clusters to efficiently respond to the structural variations of plant xyloglucans. The data here will enable refined functional prediction of xyloglucan utilization among diverse environmental taxa in animal guts and beyond.