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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0522

PubMed

20829291, Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.

Characterization method

sequence homology analysis,microscopy

Genomic accession number

NC_006347.1

Nucelotide position range

4161194-4179638

Substrate

capsule polysaccharide

Loci

BF3646-BF3665

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BF_RS17300 WP_011203383.1 0 - 717 (-) NC_006347.1:4161194-4161911 -
- BF_RS17305 WP_011203384.1 724 - 1714 (-) NC_006347.1:4161918-4162908 -
- BF_RS17310 WP_011203385.1 1710 - 2484 (-) NC_006347.1:4162904-4163678 -
- BF_RS17315 WP_011203386.1 2470 - 3493 (-) NC_006347.1:4163664-4164687 -
- BF_RS17320 WP_011203387.1 3551 - 4397 (-) NC_006347.1:4164745-4165591 -
- BF_RS17325 WP_011203388.1 4399 - 5479 (-) NC_006347.1:4165593-4166673 -
- BF_RS17330 WP_011203389.1 5475 - 6192 (-) NC_006347.1:4166669-4167386 -
- BF_RS17335 WP_032543698.1 6188 - 6809 (-) NC_006347.1:4167382-4168003 -
- BF_RS17340 WP_011203391.1 6811 - 7864 (-) NC_006347.1:4168005-4169058 -
- BF_RS17345 WP_164927389.1 7943 - 9116 (-) NC_006347.1:4169137-4170310 -
wecB BF_RS17350 WP_011203393.1 9120 - 10275 (-) NC_006347.1:4170314-4171469 5.1.3.14
- BF_RS17355 WP_011203394.1 10299 - 11280 (-) NC_006347.1:4171493-4172474 -
- BF_RS17360 WP_011203395.1 11300 - 12770 (-) NC_006347.1:4172494-4173964 -
- BF_RS17365 WP_011203396.1 12815 - 13913 (-) NC_006347.1:4174009-4175107 -
- BF_RS17370 WP_011203397.1 13897 - 15100 (-) NC_006347.1:4175091-4176294 -
- BF_RS17375 WP_005802402.1 15071 - 15509 (-) NC_006347.1:4176265-4176703 -
- BF_RS17380 WP_005802401.1 15508 - 16054 (-) NC_006347.1:4176702-4177248 -
- BF_RS17385 WP_005802400.1 16055 - 16463 (-) NC_006347.1:4177249-4177657 -
rfbA BF_RS17390 WP_005802398.1 16452 - 17346 (-) NC_006347.1:4177646-4178540 2.7.7.24
- BF_RS17395 WP_005790532.1 17347 - 18445 (-) NC_006347.1:4178541-4179639 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 717 (-) CDS No
- 725 - 1714 (-) CDS No
- 1711 - 2484 (-) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 2471 - 3493 (-) CAZyme: GT4 Yes
- 3552 - 4397 (-) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 4400 - 5479 (-) other Yes
- 5476 - 6192 (-) CAZyme: GT32 Yes
- 6189 - 6809 (-) other Yes
- 6812 - 7864 (-) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 7944 - 9116 (-) other Yes
wecB 9121 - 10275 (-) other Yes
- 10300 - 11280 (-) CAZyme: GT2_Glycos_transf_2|GT2 Yes
- 11301 - 12770 (-) other Yes
- 12816 - 13913 (-) STP: STP|Aminotran_1_2 Yes
- 13898 - 15100 (-) other Yes
- 15072 - 15509 (-) other Yes
- 15509 - 16054 (-) other Yes
- 16056 - 16463 (-) other Yes
rfbA 16453 - 17346 (-) other Yes
- 17348 - 18445 (-) TC: gnl|TC-DB|R6S968|9.B.146.1.4 Yes

PUL ID

PUL0522

PubMed

20829291, Microbiology (Reading). 2010 Nov;156(Pt 11):3255-3269. doi: 10.1099/mic.0.042978-0. Epub 2010 Sep 9.

Title

Twenty-eight divergent polysaccharide loci specifying within- and amongst-strain capsule diversity in three strains of Bacteroides fragilis.

Author

Patrick S, Blakely GW, Houston S, Moore J, Abratt VR, Bertalan M, Cerdeno-Tarraga AM, Quail MA, Corton N, Corton C, Bignell A, Barron A, Clark L, Bentley SD, Parkhill J

Abstract

Comparison of the complete genome sequence of Bacteroides fragilis 638R, originally isolated in the USA, was made with two previously sequenced strains isolated in the UK (NCTC 9343) and Japan (YCH46). The presence of 10 loci containing genes associated with polysaccharide (PS) biosynthesis, each including a putative Wzx flippase and Wzy polymerase, was confirmed in all three strains, despite a lack of cross-reactivity between NCTC 9343 and 638R surface PS-specific antibodies by immunolabelling and microscopy. Genomic comparisons revealed an exceptional level of PS biosynthesis locus diversity. Of the 10 divergent PS-associated loci apparent in each strain, none is similar between NCTC 9343 and 638R. YCH46 shares one locus with NCTC 9343, confirmed by mAb labelling, and a second different locus with 638R, making a total of 28 divergent PS biosynthesis loci amongst the three strains. The lack of expression of the phase-variable large capsule (LC) in strain 638R, observed in NCTC 9343, is likely to be due to a point mutation that generates a stop codon within a putative initiating glycosyltransferase, necessary for the expression of the LC in NCTC 9343. Other major sequence differences were observed to arise from different numbers and variety of inserted extra-chromosomal elements, in particular prophages. Extensive horizontal gene transfer has occurred within these strains, despite the presence of a significant number of divergent DNA restriction and modification systems that act to prevent acquisition of foreign DNA. The level of amongst-strain diversity in PS biosynthesis loci is unprecedented.