G3: Genes, Genomes, Genetics (Jul 2018)

BLAST-XYPlot Viewer: A Tool for Performing BLAST in Whole-Genome Sequenced Bacteria/Archaea and Visualize Whole Results Simultaneously

  • Yagul Pedraza-Pérez,
  • Rodrigo Alberto Cuevas-Vede,
  • Ángel Bernardo Canto-Gómez,
  • Liliana López-Pliego,
  • Rosa María Gutiérrez-Ríos,
  • Ismael Hernández-Lucas,
  • Gustavo Rubín-Linares,
  • Ygnacio Martínez-Laguna,
  • Jesús Francisco López-Olguín,
  • Luis Ernesto Fuentes-Ramírez

DOI
https://doi.org/10.1534/g3.118.200220
Journal volume & issue
Vol. 8, no. 7
pp. 2167 – 2172

Abstract

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One of the most commonly used tools to compare protein or DNA sequences against databases is BLAST. We introduce a web tool that allows the performance of BLAST-searches of protein/DNA sequences in whole-genome sequenced bacteria/archaea, and displays a large amount of BLAST-results simultaneously. The circular bacterial replicons are projected as horizontal lines with fixed length of 360, representing the degrees of a circle. A coordinate system is created with length of the replicon along the x-axis and the number of replicon used on the y-axis. When a query sequence matches with a gene/protein of a particular replicon, the BLAST-results are depicted as an “x,y” position in a specially adapted plot. This tool allows the visualization of the results from the whole data to a particular gene/protein in real time with low computational resources.

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