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PlantCAZyme
Cite: NAR/gkaa742 2020

Because CGCFinder predicted no CGC for this PUL, the gene cluster depicted below contains dbCAN2 and CGC signature predictions for all genes in the PUL, instead of a predicted CGC.


PUL General Information

Literature Information

PUL ID

PUL0512

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

5104828-5113654

Substrate

O-glycan

Loci

BF4298-BF4306

Species

Bacteroides fragilis/817

Degradation or Biosynthesis

biosynthesis

Gene Name

Locus Tag

Protein ID

Gene Position

GenBank Contig Range

EC Number

- BF9343_4184 CAH09965.1 0 - 126 (+) CR626927.1:5104828-5104954 -
- BF9343_4185 CAH09966.1 129 - 1317 (+) CR626927.1:5104957-5106145 -
- BF9343_4186 CAH09967.1 1326 - 2337 (+) CR626927.1:5106154-5107165 -
- BF9343_4187 CAH09968.1 2336 - 3536 (+) CR626927.1:5107164-5108364 -
- BF9343_4188 CAH09969.1 3604 - 4252 (+) CR626927.1:5108432-5109080 -
- BF9343_4189 CAH09970.1 4303 - 5434 (-) CR626927.1:5109131-5110262 5.1.3.14
- BF9343_4190 CAH09971.1 5488 - 6691 (-) CR626927.1:5110316-5111519 -
- BF9343_4191 CAH09972.1 6795 - 8061 (+) CR626927.1:5111623-5112889 -
- BF9343_4192 CAH09973.1 8053 - 8827 (+) CR626927.1:5112881-5113655 -
cobB BF9343_4193 CAH09974.1 8760 - 8827 (-) CR626927.1:5113588-5113655 -

Cluster number

0

Gene name

Gene position

Gene type

Found by CGCFinder?

- 1 - 126 (+) CDS No
- 130 - 1317 (+) CAZyme: GT4 No
- 1327 - 2337 (+) CAZyme: GT0|GT94 No
- 2337 - 3536 (+) CAZyme: GT4 No
- 3605 - 4252 (+) CDS No
- 4304 - 5434 (-) CDS No
- 5489 - 6691 (-) CDS No
- 6796 - 8061 (+) CAZyme: GT4 No
- 8054 - 8827 (+) CAZyme: GT2|GT2_Glycos_transf_2 No
cobB 8761 - 8827 (-) CDS No

PUL ID

PUL0512

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.