Perez-Quintero Alvaro auteur aut IRD Lamy L. auteur aut IRD Gordon J. L. auteur aut IRD Escalon A. auteur aut IRD Cunnac Sébastien auteur aut IRD Szurek Boris auteur aut IRD Gagnevin L. auteur aut IRD text journalArticle eng text/pdf born digital access Transcription Activator-Like (TAL) effectors from Xanthomonas plant pathogenic bacteria can bind to the promoter region of plant genes and induce their expression. DNA-binding specificity is governed by a central domain made of nearly identical repeats, each determining the recognition of one base pair via two amino acid residues (a.k.a. Repeat Variable Di-residue, or RVD). Knowing how TAL effectors differ from each other within and between strains would be useful to infer functional and evolutionary relationships, but their repetitive nature precludes reliable use of traditional alignment methods. The suite QueTAL was therefore developed to offer tailored tools for comparison of TAL effector genes. The program DisTAL considers each repeat as a unit, transforms a TAL effector sequence into a sequence of coded repeats and makes pair-wise alignments between these coded sequences to construct trees. The program FuncTAL is aimed at finding TAL effectors with similar DNA-binding capabilities. It calculates correlations between position weight matrices of potential target DNA sequence predicted from the RVD sequence, and builds trees based on these correlations. The programs accurately represented phylogenetic and functional relationships between TAL effectors using either simulated or literature-curated data. When using the programs on a large set of TAL effector sequences, the DisTAL tree largely reflected the expected species phylogeny. In contrast, FuncTAL showed that TAL effectors with similar binding capabilities can be found between phylogenetically distant taxa. This suite will help users to rapidly analyse any TAL effector genes of interest and compare them to other available TAL genes and should improve our understanding of TAL effectors evolution. specialized TAL effectors phylogeny Ralstonia Xanthomonas functional convergence EBE 076 020 6 art. 545 [16 p.] 2015 1664-462X https://www.documentation.ird.fr/hor/fdi:010064926 10.3389/fpls.2015.00545 1664-462X [F B010064926] https://www.documentation.ird.fr/hor/fdi:010064926 https://www.documentation.ird.fr/intranet/publi/2015/09/010064926.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2015-10-07 2017-08-23 fdi:010064926 fre