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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0513

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

1674655-1690799

Substrate

capsule polysaccharide

Loci

BF1430-BF1445

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BF_RS06720 WP_011202418.1 0 - 1209 (+) NC_006347.1:1674655-1675864 -
- BF_RS06725 WP_011202419.1 1220 - 2363 (+) NC_006347.1:1675875-1677018 -
- BF_RS06730 WP_005776094.1 2368 - 2590 (+) NC_006347.1:1677023-1677245 -
- BF_RS06735 WP_005795364.1 2591 - 3809 (+) NC_006347.1:1677246-1678464 -
- BF_RS06740 WP_005800809.1 3805 - 4528 (+) NC_006347.1:1678460-1679183 -
- BF_RS06745 WP_005795360.1 4530 - 5172 (+) NC_006347.1:1679185-1679827 -
- BF_RS06750 WP_005795358.1 5186 - 6236 (+) NC_006347.1:1679841-1680891 -
- BF_RS06755 WP_011202420.1 6251 - 7430 (+) NC_006347.1:1680906-1682085 -
- BF_RS06760 WP_032572936.1 7740 - 8925 (+) NC_006347.1:1682395-1683580 -
- BF_RS06765 WP_011202422.1 8911 - 10168 (+) NC_006347.1:1683566-1684823 -
- BF_RS06770 WP_011202423.1 10174 - 11212 (+) NC_006347.1:1684829-1685867 -
- BF_RS06775 WP_005795347.1 11222 - 12479 (+) NC_006347.1:1685877-1687134 -
- BF_RS06780 WP_005795345.1 12486 - 13458 (+) NC_006347.1:1687141-1688113 -
- BF_RS06785 WP_005795343.1 13467 - 14274 (+) NC_006347.1:1688122-1688929 -
- BF_RS06790 WP_011202424.1 14302 - 15526 (+) NC_006347.1:1688957-1690181 -
- BF_RS06795 WP_005795339.1 15557 - 16145 (+) NC_006347.1:1690212-1690800 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1209 (+) CDS No
- 1221 - 2363 (+) CDS No
- 2369 - 2590 (+) CDS No
- 2592 - 3809 (+) CDS No
- 3806 - 4528 (+) CDS No
- 4531 - 5172 (+) CDS No
- 5187 - 6236 (+) CDS No
- 6252 - 7430 (+) CDS No
- 7741 - 8925 (+) CDS No
- 8912 - 10168 (+) CDS No
- 10175 - 11212 (+) CDS No
- 11223 - 12479 (+) CDS No
- 12487 - 13458 (+) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 13468 - 14274 (+) CAZyme: GT2|GT2_Glycos_transf_2 Yes
- 14303 - 15526 (+) other Yes
- 15558 - 16145 (+) TC: gnl|TC-DB|H8E4X1|9.B.18.1.2 Yes

PUL ID

PUL0513

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.