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Cite: NAR/gkaa742 2020



PUL General Information

Literature Information

PUL ID

PUL0507

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

CR626927.1

Nucelotide position range

895989-917654

Substrate

capsule polysaccharide

Loci

BF0733-BF0752

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BF9343_0698 CAH06479.1 0 - 1209 (+) CR626927.1:895989-897198 -
- BF9343_0699 CAH06480.1 1228 - 2362 (+) CR626927.1:897217-898351 -
- BF9343_0700 CAH06481.1 2354 - 2963 (+) CR626927.1:898343-898952 -
- BF9343_0701 CAH06482.1 3023 - 4079 (+) CR626927.1:899012-900068 -
- BF9343_0702 CAH06483.1 4146 - 5598 (+) CR626927.1:900135-901587 -
- BF9343_0703 CAH06484.1 5594 - 6758 (+) CR626927.1:901583-902747 -
- BF9343_0704 CAH06485.1 6790 - 7891 (+) CR626927.1:902779-903880 -
- BF9343_0705 CAH06486.1 7902 - 9018 (+) CR626927.1:903891-905007 -
- BF9343_0706 CAH06487.1 9027 - 10047 (+) CR626927.1:905016-906036 -
- BF9343_0707 CAH06488.1 10043 - 11141 (+) CR626927.1:906032-907130 -
- BF9343_0708 CAH06489.1 11158 - 12367 (+) CR626927.1:907147-908356 -
- BF9343_0709 CAH06490.1 12377 - 13538 (+) CR626927.1:908366-909527 -
- BF9343_0710 Q8VSS7 13635 - 13836 (+) CR626927.1:909624-909825 -
- BF9343_0711 CAH06492.1 14140 - 15049 (-) CR626927.1:910129-911038 -
- BF9343_0712 CAH06493.1 15331 - 17206 (+) CR626927.1:911320-913195 -
- BF9343_0713 CAH06494.1 17207 - 18425 (+) CR626927.1:913196-914414 -
- BF9343_0714 CAH06495.1 18443 - 19052 (+) CR626927.1:914432-915041 -
- BF9343_0715 CAH06496.1 19056 - 19641 (+) CR626927.1:915045-915630 -
- BF9343_0716 CAH06497.1 19833 - 20445 (-) CR626927.1:915822-916434 -
- BF9343_0717 CAH06498.1 20532 - 21666 (+) CR626927.1:916521-917655 -

Cluster number

1

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 1209 (+) CDS No
- 1229 - 2362 (+) STP: STP|Aminotran_1_2 No
- 2355 - 2963 (+) CDS No
- 3024 - 4079 (+) CDS No
- 4147 - 5598 (+) TC: gnl|TC-DB|O32273|2.A.66.2.6 Yes
- 5595 - 6758 (+) other Yes
- 6791 - 7891 (+) other Yes
- 7903 - 9018 (+) other Yes
- 9028 - 10047 (+) other Yes
- 10044 - 11141 (+) other Yes
- 11159 - 12367 (+) other Yes
- 12378 - 13538 (+) other Yes
- 14141 - 15049 (-) other Yes
- 15332 - 17206 (+) CAZyme: PL12 Yes
- 17208 - 18425 (+) other Yes
- 18444 - 19052 (+) TC: gnl|TC-DB|H8E4X1|9.B.18.1.2 Yes
- 19057 - 19641 (+) CDS No
- 19834 - 20445 (-) CDS No
- 20533 - 21666 (+) CDS No

PUL ID

PUL0507

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.