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

• Main Authors: 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
• Format: Article
• Language: English
• Published: Oxford University Press 2018-07-01
• Series: G3: Genes, Genomes, Genetics
• Subjects: large scale BLAST; bacterial genomes; operon search; BLAST-XYPlot viewer
• Online Access: http://g3journal.org/lookup/doi/10.1534/g3.118.200220

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.