Perez-Quintero A. L. auteur aut IRD Rodriguez L. M. auteur aut IRD Dereeper Alexis auteur aut IRD Lopez C. auteur aut IRD Koebnik Ralf auteur aut IRD Szurek Boris auteur aut IRD Cunnac Sébastien auteur aut IRD text journalArticle eng text/pdf reformatted digital access Transcription Activators-Like Effectors (TALEs) belong to a family of virulence proteins from the Xanthomonas genus of bacterial plant pathogens that are translocated into the plant cell. In the nucleus, TALEs act as transcription factors inducing the expression of susceptibility genes. A code for TALE-DNA binding specificity and high-resolution three-dimensional structures of TALE-DNA complexes were recently reported. Accurate prediction of TAL Effector Binding Elements (EBEs) is essential to elucidate the biological functions of the many sequenced TALEs as well as for robust design of artificial TALE DNA-binding domains in biotechnological applications. In this work a program with improved EBE prediction performances was developed using an updated specificity matrix and a position weight correction function to account for the matching pattern observed in a validation set of TALE-DNA interactions. To gain a systems perspective on the large TALE repertoires from X. oryzae strains, this program was used to predict rice gene targets for 99 sequenced family members. Integrating predictions and available expression data in a TALE-gene network revealed multiple candidate transcriptional targets for many TALEs as well as several possible instances of functional convergence among TALEs. specialized 084 076 020 8 7 e68464 2013 1932-6203 https://www.documentation.ird.fr/hor/fdi:010060556 10.1371/journal.pone.0068464 1932-6203 [F B010060556] https://www.documentation.ird.fr/hor/fdi:010060556 https://horizon.documentation.ird.fr/exl-doc/pleins_textes/divers17-10/010060556.pdf IRD - Base Horizon / Pleins textes 2013-10-02 2017-10-31 fdi:010060556 fre