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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0113

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_GG697150.2

Nucelotide position range

404290-430480

Substrate

O-glycan,N-glycan

Loci

FAEPRAA2165_RS04780-FAEPRAA2165_RS04885

Species

Faecalibacterium prausnitzii/853

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- FAEPRAA2165_RS04780 WP_005931616.1 112 - 847 (-) NZ_GG697150.2:404402-405137 -
- FAEPRAA2165_RS15975 WP_005931619.1 872 - 1916 (-) NZ_GG697150.2:405162-406206 -
- FAEPRAA2165_RS04790 WP_005931622.1 1932 - 2124 (-) NZ_GG697150.2:406222-406414 -
- FAEPRAA2165_RS04795 WP_005931626.1 2135 - 2762 (-) NZ_GG697150.2:406425-407052 -
- FAEPRAA2165_RS04800 WP_005931628.1 2779 - 3622 (-) NZ_GG697150.2:407069-407912 -
- FAEPRAA2165_RS04805 WP_005931631.1 3637 - 4228 (-) NZ_GG697150.2:407927-408518 -
- FAEPRAA2165_RS04810 WP_005931633.1 4266 - 4542 (-) NZ_GG697150.2:408556-408832 -
- FAEPRAA2165_RS04815 WP_035393727.1 4710 - 5529 (-) NZ_GG697150.2:409000-409819 -
- FAEPRAA2165_RS04820 WP_005931637.1 5767 - 8180 (-) NZ_GG697150.2:410057-412470 -
- FAEPRAA2165_RS04825 WP_005931639.1 8405 - 9917 (-) NZ_GG697150.2:412695-414207 -
- FAEPRAA2165_RS04830 WP_005931641.1 9987 - 11427 (-) NZ_GG697150.2:414277-415717 -
- FAEPRAA2165_RS04835 WP_035393729.1 11459 - 12407 (-) NZ_GG697150.2:415749-416697 -
- FAEPRAA2165_RS04840 WP_005931645.1 12441 - 13362 (-) NZ_GG697150.2:416731-417652 -
- FAEPRAA2165_RS04845 WP_005931648.1 13358 - 14066 (-) NZ_GG697150.2:417648-418356 -
- FAEPRAA2165_RS04850 WP_157747396.1 14084 - 15737 (-) NZ_GG697150.2:418374-420027 -
- FAEPRAA2165_RS04855 WP_015565765.1 15808 - 16765 (-) NZ_GG697150.2:420098-421055 -
- FAEPRAA2165_RS04860 WP_005931657.1 16782 - 17766 (-) NZ_GG697150.2:421072-422056 -
- FAEPRAA2165_RS04865 WP_099357349.1 17767 - 18640 (-) NZ_GG697150.2:422057-422930 -
- FAEPRAA2165_RS04870 WP_035393731.1 18721 - 19675 (-) NZ_GG697150.2:423011-423965 -
- FAEPRAA2165_RS04875 WP_005931664.1 19801 - 21412 (-) NZ_GG697150.2:424091-425702 -
- FAEPRAA2165_RS04880 WP_005931667.1 21670 - 23050 (-) NZ_GG697150.2:425960-427340 -
- FAEPRAA2165_RS04885 WP_005931669.1 23046 - 24618 (-) NZ_GG697150.2:427336-428908 -
- FAEPRAA2165_RS04890 WP_005931672.1 24614 - 24821 (-) NZ_GG697150.2:428904-429111 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 113 - 847 (-) CDS No
- 873 - 1916 (-) CDS No
- 1933 - 2124 (-) CDS No
- 2136 - 2762 (-) CDS No
- 2780 - 3622 (-) CDS No
- 3638 - 4228 (-) CDS No
- 4267 - 4542 (-) CDS No
- 4711 - 5529 (-) CDS No
- 5768 - 8180 (-) TF: DBD-Pfam|GerE No
- 8406 - 9917 (-) CDS No
- 9988 - 11427 (-) CAZyme: GH1 Yes
- 11460 - 12407 (-) other Yes
- 12442 - 13362 (-) other Yes
- 13359 - 14066 (-) other Yes
- 14085 - 15737 (-) other Yes
- 15809 - 16765 (-) TC: gnl|TC-DB|Q9X272|3.A.1.5.15 Yes
- 16783 - 17766 (-) TC: gnl|TC-DB|P76027|3.A.1.5.41 Yes
- 17768 - 18640 (-) TC: gnl|TC-DB|W0WMS8|3.A.1.5.39 Yes
- 18722 - 19675 (-) TC: gnl|TC-DB|W0WN20|3.A.1.5.39 Yes
- 19802 - 21412 (-) TC: gnl|TC-DB|P75797|3.A.1.5.11 Yes
- 21671 - 23050 (-) CDS No
- 23047 - 24618 (-) TF: DBD-Pfam|HTH_AraC No
- 24615 - 24821 (-) CDS No

PUL ID

PUL0113

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.