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From the third issue of 2017, Microarrays has changed its name to High-Throughput.

Open AccessArticle
Microarrays 2015, 4(1), 84-97; doi:10.3390/microarrays4010084

In Silico Genomic Fingerprints of the Bacillus anthracis Group Obtained by Virtual Hybridization

1
Laboratory of Biotechnology and Genomic Bioinformatics, Department of Biochemistry, National School of Biological Sciences, National Polytechnic Institute, Mexico City 11340, Mexico
2
Institute of Epidemiological Diagnosis & Reference, Mexico City 01480, Mexico
These authors contributed equally to this work.
*
Author to whom correspondence should be addressed.
Academic Editor: Heather J. Ruskin
Received: 21 October 2014 / Revised: 12 February 2015 / Accepted: 13 February 2015 / Published: 17 February 2015
(This article belongs to the Special Issue Computational Modeling and Analysis of Microarray Data: New Horizons)
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Abstract

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. View Full-Text
Keywords: Bacillus anthracis genomic fingerprints; virtual hybridization; DNA microarrays Bacillus anthracis genomic fingerprints; virtual hybridization; DNA microarrays
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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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MDPI and ACS Style

Jaimes-Díaz, H.; Larios-Serrato, V.; Lloret-Sánchez, T.; Olguín-Ruiz, G.; Sánchez-Vallejo, C.; Carreño-Durán, L.; Maldonado-Rodríguez, R.; Méndez-Tenorio, A. In Silico Genomic Fingerprints of the Bacillus anthracis Group Obtained by Virtual Hybridization. Microarrays 2015, 4, 84-97.

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