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GENOMIC TAXONOMY OF VIBRIOS
Thompson, Cristiane C. et al. | Date Issued: 2009
Author
Thompson, Cristiane C.
Vicente, Ana Carolina P.
Souza, Rangel C.
Vasconcelos, Ana Tereza R.
Vesth, Tammi
Alves, Nelson
Ussery, David W.
Iida, Tetsuya
Thompson, Fabiano L.
Affilliation
Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genética Molecular de Microrganismos. Rio de Janeiro, RJ. Brasil.
Fundação Oswaldo Cruz. Instituto Oswaldo Cruz. Laboratório de Genética Molecular de Microrganismos. Rio de Janeiro, RJ. Brasil.
Laboratório Nacional de Computação Científica. Departamento de Matemática Aplicada e Computacional. Laboratório de Bioinformática. Petrópolis, RJ, Brasil.
Laboratório Nacional de Computação Científica. Departamento de Matemática Aplicada e Computacional. Laboratório de Bioinformática. Petrópolis, RJ, Brasil.
The Technical University of Denmark. Center for Biological Sequence Analysis. Department of Biotechnology. Lyngby, Denmark.
Universidade Federal do Rio de Janeiro. Instituto de Biologia. Departamento de Genética. Rio de Janeiro, RJ, Brasil.
The Technical University of Denmark. Center for Biological Sequence Analysis. Department of Biotechnology. Lyngby, Denmark.
Osaka University. Research Institute for Microbial Diseases. International Research Center for Infectious Diseases. Laboratory of Genomic Research on Pathogenic Bacteria. Osaka, Japan.
Universidade Federal do Rio de Janeiro. Instituto de Biologia. Departamento de Genética. Rio de Janeiro, RJ, Brasil.
Abstract
Vibrio taxonomy has been based on a polyphasic approach. In this study, we retrieve useful taxonomic information (i.e. data that can be used to distinguish different taxonomic levels, such as species and genera) from 32 genome sequences of different vibrio species. We use a variety of tools to explore the taxonomic relationship between the sequenced genomes, including Multilocus Sequence Analysis (MLSA), supertrees, Average Amino Acid Identity (AAI), genomic signatures, and Genome BLAST atlases. Our aim is to analyse the usefulness of these tools for species identification in vibrios.
Keywords in Portuguese
Taxonomia genômica
Vibrios
Análise de Sequência Multilocus
Identidade Média de Aminoácidos
 
Keywords
Genomic taxonomy
vibrios
Multilocus Sequence Analysis
Average Amino Acid Identity
Genome BLAST atlases
 
Publisher
BioMed Central
Citation
THOMPSON, Cristiane C. Genomic taxonomy of virbios. BMC Evolutionary Biology, v.9, n.258, 16p, Oct. 2009.
DOI
10.1186/1471-2148-9-258
ISSN
1471-2148