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In Silico Genomic Fingerprints of the Bacillus anthracis Group Obtained by Virtual Hybridization.
Jaimes-Díaz, Hueman; Larios-Serrato, Violeta; Lloret-Sánchez, Teresa; Olguín-Ruiz, Gabriela; Sánchez-Vallejo, Carlos; Carreño-Durán, Luis; Maldonado-Rodríguez, Rogelio; Méndez-Tenorio, Alfonso.
Afiliação
  • Jaimes-Díaz H; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. hjaimesd@ipn.mx.
  • Larios-Serrato V; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. siedracko@hotmail.com.
  • Lloret-Sánchez T; Institute of Epidemiological Diagnosis & Reference, Mexico City 01480, Mexico. lloretys@gmail.com.
  • Olguín-Ruiz G; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. golguinr@ipn.mx.
  • Sánchez-Vallejo C; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. cjsanchezv@ipn.mx.
  • Carreño-Durán L; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. lcarreno@ipn.mx.
  • Maldonado-Rodríguez R; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. romaldo_dr@hotmail.com.
  • Méndez-Tenorio A; Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico. amendezt@ipn.mx.
Microarrays (Basel) ; 4(1): 84-97, 2015 Feb 17.
Article em En | MEDLINE | ID: mdl-27600214
In this study we evaluate the capacity of Virtual Hybridization to identify between highly related bacterial strains. Eight genomic fingerprints were obtained by virtual hybridization for the Bacillus anthracis genome set, and a set of 15,264 13-nucleotide short probes designed to produce genomic fingerprints unique for each organism. The data obtained from each genomic fingerprint were used to obtain hybridization patterns simulating a DNA microarray. Two virtual hybridization methods were used: the Direct and the Extended method to identify the number of potential hybridization sites and thus determine the minimum sensitivity value to discriminate between genomes with 99.9% similarity. Genomic fingerprints were compared using both methods and phylogenomic trees were constructed to verify that the minimum detection value is 0.000017. Results obtained from the genomic fingerprints suggest that the distribution in the trees is correct, as compared to other taxonomic methods. Specific virtual hybridization sites for each of the genomes studied were also identified.
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Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Idioma: En Revista: Microarrays (Basel) Ano de publicação: 2015 Tipo de documento: Article País de afiliação: México País de publicação: Suíça
Texto completo
Adicionar na Minha BVS
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Coleções: 01-internacional Base de dados: MEDLINE Idioma: En Revista: Microarrays (Basel) Ano de publicação: 2015 Tipo de documento: Article País de afiliação: México País de publicação: Suíça