Whole-genome comparison between reference sequences and oyster Vibrio vulnificus C-genotype strains

PloS One
Abraham GuerreroMarcial Leonardo Lizárraga-Partida

Abstract

Whole-genome sequences of Vibrio vulnificus clinical genotype (C-genotype) from the CICESE Culture Collection, isolated from oysters, were compared with reference sequences of CMCP6 and YJ016 V. vulnificus C-genotype strains of clinical origin. The RAST web server estimated the whole genome to be ~4.8 Mb in CICESE strain 316 and ~4.7 Mb in CICESE strain 325. No plasmids were detected in the CICESE strains. Based on a phylogenetic tree that was constructed with the whole-genome results, we observed high similarity between the reference sequences and oyster C-genotype isolates and a sharp contrast with environmental genotype (E-genotype) reference sequences, indicating that the differences between the C- and E-genotypes do not necessarily correspond to their isolation origin. The CICESE strains share 3488 genes (63.2%) with the YJ016 strain and 3500 genes (63.9%) with the CMCP6 strain. A total of 237 pathogenicity associated genes were selected from reference clinical strains, where-92 genes were from CMCP6, 126 genes from YJ016, and 19 from MO6-24/O; the presence or absence of these genes was recorded for the CICESE strains. Of the 92 genes that were selected for CMCP6, 67 were present in both CICESE strains, as were as 86 of th...Continue Reading

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Citations

Jan 17, 2021·Molecular and Cellular Probes·J DickersonJ B Mott

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Datasets Mentioned

BETA
AE016795.3
AE016796.2
BA000037.2
BA000038.2
QKYO00000000

Software Mentioned

VAGUE
MEM
Harvest suite
Rapid Annotation Using Subsystem Technology ( RAST )
Qualimap
Blast Ring Image Generator ( BRIG
Parsnp
CAP3
RAST
SAMtools

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