FlaGs and webFlaGs: discovering novel biology through the analysis of gene neighbourhood conservation.

ABSTRACT:

Summary

Analysis of conservation of gene neighbourhoods over different evolutionary levels is important for understanding operon and gene cluster evolution, and predicting functional associations. Our tool FlaGs (standing for Flanking Genes) takes a list of NCBI protein accessions as input, clusters neighbourhood-encoded proteins into homologous groups using sensitive sequence searching, and outputs a graphical visualization of the gene neighbourhood and its conservation, along with a phylogenetic tree annotated with flanking gene conservation. FlaGs has demonstrated utility for molecular evolutionary analysis, having uncovered a new toxin-antitoxin system in prokaryotes and bacteriophages. The web tool version of FlaGs (webFlaGs) can optionally include a BLASTP search against a re

SUBMITTER: Saha CK 

PROVIDER: S-EPMC8189683 | biostudies-literature | 2021 Jun

REPOSITORIES: biostudies-literature