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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0098

PubMed

31275257, Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.

Characterization method

sequence homology analysis

Genomic accession number

NZ_DS990126.1

Nucelotide position range

30380-44393

Substrate

O-glycan,N-glycan

Loci

None

Species

Bacteroides plebeius/310297

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

nanU BACPLE_RS06770 WP_007560167.1 4 - 1558 (-) NZ_DS990126.1:30384-31938 -
- BACPLE_RS06775 WP_007560168.1 1571 - 4937 (-) NZ_DS990126.1:31951-35317 -
- BACPLE_RS06780 WP_040312564.1 5279 - 6902 (-) NZ_DS990126.1:35659-37282 -
- BACPLE_RS06785 WP_007560170.1 6917 - 7364 (-) NZ_DS990126.1:37297-37744 -
- BACPLE_RS06790 WP_007560171.1 7383 - 8622 (-) NZ_DS990126.1:37763-39002 -
- BACPLE_RS06795 WP_007560172.1 8660 - 9845 (-) NZ_DS990126.1:39040-40225 -
- BACPLE_RS06800 WP_007560173.1 9855 - 10773 (-) NZ_DS990126.1:40235-41153 -
- BACPLE_RS06805 WP_007560174.1 10864 - 11947 (-) NZ_DS990126.1:41244-42327 -
- BACPLE_RS06810 WP_007560175.1 12246 - 13455 (+) NZ_DS990126.1:42626-43835 -
- BACPLE_RS06815 WP_007560176.1 13517 - 13727 (-) NZ_DS990126.1:43897-44107 -
- BACPLE_RS06820 WP_007560177.1 13733 - 13976 (-) NZ_DS990126.1:44113-44356 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

nanU 5 - 1558 (-) TC: gnl|TC-DB|Q5LEN2|8.A.46.1.4 Yes
- 1572 - 4937 (-) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 5280 - 6902 (-) CAZyme: GH33 Yes
- 6918 - 7364 (-) other Yes
- 7384 - 8622 (-) TC: gnl|TC-DB|O06742|2.A.1.32.1 Yes
- 8661 - 9845 (-) CDS No
- 9856 - 10773 (-) CDS No
- 10865 - 11947 (-) CDS No
- 12247 - 13455 (+) TF: DBD-Pfam|MarR,DBD-SUPERFAMILY|0043935 No
- 13518 - 13727 (-) TF: DBD-Pfam|HTH_3,DBD-SUPERFAMILY|0043143 No
- 13734 - 13976 (-) CDS No
- 13991 - 14014 (-) CDS No

PUL ID

PUL0098

PubMed

31275257, Front Microbiol. 2019 Jun 7;10:1286. doi: 10.3389/fmicb.2019.01286. eCollection 2019.

Title

Investigating Host Microbiota Relationships Through Functional Metagenomics.

Author

Laville E, Perrier J, Bejar N, Maresca M, Esque J, Tauzin AS, Bouhajja E, Leclerc M, Drula E, Henrissat B, Berdah S, Di Pasquale E, Robe P, Potocki-Veronese G

Abstract

The human Intestinal mucus is formed by glycoproteins, the O- and N-linked glycans which constitute a crucial source of carbon for commensal gut bacteria, especially when deprived of dietary glycans of plant origin. In recent years, a dozen carbohydrate-active enzymes from cultivated mucin degraders have been characterized. But yet, considering the fact that uncultured species predominate in the human gut microbiota, these biochemical data are far from exhaustive. In this study, we used functional metagenomics to identify new metabolic pathways in uncultured bacteria involved in harvesting mucin glycans. First, we performed a high-throughput screening of a fosmid metagenomic library constructed from the ileum mucosa microbiota using chromogenic substrates. The screening resulted in the isolation of 124 clones producing activities crucial in the degradation of human O- and N-glycans, namely sialidases, beta-D-N-acetyl-glucosaminidase, beta-D-N-acetyl-galactosaminidase, and/or beta-D-mannosidase. Thirteen of these clones were selected based on their diversified functional profiles and were further analyzed on a secondary screening. This step consisted of lectin binding assays to demonstrate the ability of the clones to degrade human intestinal mucus. In total, the structural modification of several mucin motifs, sialylated mucin ones in particular, was evidenced for nine clones. Sequencing their metagenomic loci highlighted complex catabolic pathways involving the complementary functions of glycan sensing, transport, hydrolysis, deacetylation, and deamination, which were sometimes associated with amino acid metabolism machinery. These loci are assigned to several Bacteroides and Feacalibacterium species highly prevalent and abundant in the gut microbiome and explain the metabolic flexibility of gut bacteria feeding both on dietary and human glycans.