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Phylogenetic analysis of vibrios and related species by means of atpA gene sequences

¹ Instituto Oswaldo Cruz, Rio de Janeiro, Brazil
² Department of Genetics, Federal University of Rio de Janeiro, Brazil
³ Laboratory of Microbiology and BCCM/LMG Bacteria Collection, Ghent University, Belgium

Correspondence
Cristiane C. Thompson
thompson{at}ioc.fiocruz.br

We investigated the use of atpA gene sequences as alternative phylogenetic and identification markers for vibrios. A fragment of 1322 bp (corresponding to approximately 88 % of the coding region) was analysed in 151 strains of vibrios. The relationships observed were in agreement with the phylogeny inferred from 16S rRNA gene sequence analysis. For instance, the Vibrio cholerae, Vibrio halioticoli, Vibrio harveyi and Vibrio splendidus species groups appeared in the atpA gene phylogenetic analyses, suggesting that these groups may be considered as separate genera within the current Vibrio genus. Overall, atpA gene sequences appeared to be more discriminatory for species differentiation than 16S rRNA gene sequences. 16S rRNA gene sequence similarities above 97 % corresponded to atpA gene sequences similarities above 80 %. The intraspecies variation in the atpA gene sequence was about 99 % sequence similarity. The results showed clearly that atpA gene sequences are a suitable alternative for the identification and phylogenetic study of vibrios.

The GenBank/EMBL/DDBJ accession numbers for the atpA gene sequences determined in this study are EF601226–EF601373.

The strains used in this study are listed in Supplementary Table S1 which is available with the online version of this paper. Figures showing a regression curve between atpA and 16S rRNA pairwise gene sequence similarity and a phylogenetic tree constructed with the maximum-parsimony method from atpA gene sequences are also available as supplementary material.

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