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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0346

PubMed

27573446, Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14.

Characterization method

gene deletion mutant and growth assay

Genomic accession number

HE717017.1

Nucelotide position range

1-22889

Substrate

xylooligosaccharide

Loci

CCG34969.1-CCG34983.1

Species

uncultured bacterium/77133

Degradation or Biosynthesis

degradation

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- - CCG34969.1 0 - 475 (-) HE717017.1:1-476 -
- - CCG34970.1 841 - 4768 (+) HE717017.1:842-4769 -
- - CCG34971.1 5359 - 5659 (+) HE717017.1:5360-5660 -
- - CCG34972.1 5935 - 6361 (+) HE717017.1:5936-6362 -
- - CCG34973.1 6916 - 7675 (-) HE717017.1:6917-7676 -
- - CCG34974.1 7678 - 7834 (-) HE717017.1:7679-7835 -
- - CCG34975.1 8464 - 10405 (-) HE717017.1:8465-10406 -
- - CCG34976.1 10413 - 13401 (-) HE717017.1:10414-13402 -
- - CCG34977.1 13526 - 15263 (-) HE717017.1:13527-15264 -
- - CCG34978.1 15612 - 16584 (-) HE717017.1:15613-16585 -
- - CCG34979.1 16596 - 17718 (-) HE717017.1:16597-17719 -
- - CCG34980.1 17930 - 18896 (+) HE717017.1:17931-18897 -
- - CCG34981.1 19066 - 20560 (-) HE717017.1:19067-20561 -
- - CCG34982.1 21459 - 21768 (-) HE717017.1:21460-21769 -
- - CCG34983.1 22148 - 22889 (-) HE717017.1:22149-22890 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 475 (-) CAZyme: GH43|GH43_29 Yes
- 842 - 4768 (+) TF: DBD-Pfam|HTH_AraC,DBD-SUPERFAMILY|0036286,DBD-SUPERFAMILY|0035607 Yes
- 5360 - 5659 (+) other Yes
- 5936 - 6361 (+) other Yes
- 6917 - 7675 (-) other Yes
- 7679 - 7834 (-) other Yes
- 8465 - 10405 (-) other Yes
- 10414 - 13401 (-) TC: gnl|TC-DB|Q45780|1.B.14.6.1 Yes
- 13527 - 15263 (-) CAZyme: GH43|GH43_12 Yes
- 15613 - 16584 (-) CAZyme: GH43|GH43_1 Yes
- 16597 - 17718 (-) CAZyme: GH10 Yes
- 17931 - 18896 (+) other Yes
- 19067 - 20560 (-) TC: gnl|TC-DB|P31435|2.A.2.3.4 Yes
- 21460 - 21768 (-) other Yes
- 22149 - 22889 (-) CAZyme: GH16 Yes

PUL ID

PUL0346

PubMed

27573446, Mol Microbiol. 2016 Nov;102(4):579-592. doi: 10.1111/mmi.13480. Epub 2016 Sep 14.

Title

Functional characterization of a gene locus from an uncultured gut Bacteroides conferring xylo-oligosaccharides utilization to Escherichia coli.

Author

Tauzin AS, Laville E, Xiao Y, Nouaille S, Le Bourgeois P, Heux S, Portais JC, Monsan P, Martens EC, Potocki-Veronese G, Bordes F

Abstract

In prominent gut Bacteroides strains, sophisticated strategies have been evolved to achieve the complete degradation of dietary polysaccharides such as xylan, which is one of the major components of the plant cell wall. Polysaccharide Utilization Loci (PULs) consist of gene clusters encoding different proteins with a vast arsenal of functions, including carbohydrate binding, transport and hydrolysis. Transport is often attributed to TonB-dependent transporters, although major facilitator superfamily (MFS) transporters have also been identified in some PULs. However, until now, few of these transporters have been biochemically characterized. Here, we targeted a PUL-like system from an uncultivated Bacteroides species that is highly prevalent in the human gut metagenome. It encodes three glycoside-hydrolases specific for xylo-oligosaccharides, a SusC/SusD tandem homolog and a MFS transporter. We combined PUL rational engineering, metabolic and transcriptional analysis in Escherichia coli to functionally characterize this genomic locus. We demonstrated that the SusC and the MFS transporters are specific for internalization of linear xylo-oligosaccharides of polymerization degree up to 3 and 4 respectively. These results were strengthened by the study of growth dynamics and transcriptional analyses in response to XOS induction of the PUL in the native strain, Bacteroides vulgatus.