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Evolution of Transcription Activator-Like Effectors in Xanthomonas oryzae.
Genome Biol Evol. 2017 06 01; 9(6):1599-1615.GB

Abstract

Transcription activator-like effectors (TALEs) are secreted by plant-pathogenic Xanthomonas bacteria into plant cells where they act as transcriptional activators and, hence, are major drivers in reprogramming the plant for the benefit of the pathogen. TALEs possess a highly repetitive DNA-binding domain of typically 34 amino acid (AA) tandem repeats, where AA 12 and 13, termed repeat variable di-residue (RVD), determine target specificity. Different Xanthomonas strains possess different repertoires of TALEs. Here, we study the evolution of TALEs from the level of RVDs determining target specificity down to the level of DNA sequence with focus on rice-pathogenic Xanthomonas oryzae pv. oryzae (Xoo) and Xanthomonas oryzae pv. oryzicola (Xoc) strains. We observe that codon pairs coding for individual RVDs are conserved to a similar degree as the flanking repeat sequence. We find strong indications that TALEs may evolve 1) by base substitutions in codon pairs coding for RVDs, 2) by recombination of N-terminal or C-terminal regions of existing TALEs, or 3) by deletion of individual TALE repeats, and we propose possible mechanisms. We find indications that the reassortment of TALE genes in clusters is mediated by an integron-like mechanism in Xoc. We finally study the effect of the presence/absence and evolutionary modifications of TALEs on transcriptional activation of putative target genes in rice, and find that even single RVD swaps may lead to considerable differences in activation. This correlation allowed a refined prediction of TALE targets, which is the crucial step to decipher their virulence activity.

Authors+Show Affiliations

Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle (Saale), Germany.Department of Plant Biotechnology, Leibniz Universität Hannover, Germany.Department of Plant Biotechnology, Leibniz Universität Hannover, Germany.Institute of Computer Science, Martin Luther University Halle-Wittenberg, Halle (Saale), Germany.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

28637323

Citation

Erkes, Annett, et al. "Evolution of Transcription Activator-Like Effectors in Xanthomonas Oryzae." Genome Biology and Evolution, vol. 9, no. 6, 2017, pp. 1599-1615.
Erkes A, Reschke M, Boch J, et al. Evolution of Transcription Activator-Like Effectors in Xanthomonas oryzae. Genome Biol Evol. 2017;9(6):1599-1615.
Erkes, A., Reschke, M., Boch, J., & Grau, J. (2017). Evolution of Transcription Activator-Like Effectors in Xanthomonas oryzae. Genome Biology and Evolution, 9(6), 1599-1615. https://doi.org/10.1093/gbe/evx108
Erkes A, et al. Evolution of Transcription Activator-Like Effectors in Xanthomonas Oryzae. Genome Biol Evol. 2017 06 1;9(6):1599-1615. PubMed PMID: 28637323.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Evolution of Transcription Activator-Like Effectors in Xanthomonas oryzae. AU - Erkes,Annett, AU - Reschke,Maik, AU - Boch,Jens, AU - Grau,Jan, PY - 2017/06/12/accepted PY - 2017/6/24/pubmed PY - 2018/4/28/medline PY - 2017/6/23/entrez KW - Xanthomonas KW - evolution of TALEs KW - evolutionary mechanisms KW - plant–pathogen interaction KW - transcription activator-like effectors (TALEs) KW - transcriptional response SP - 1599 EP - 1615 JF - Genome biology and evolution JO - Genome Biol Evol VL - 9 IS - 6 N2 - Transcription activator-like effectors (TALEs) are secreted by plant-pathogenic Xanthomonas bacteria into plant cells where they act as transcriptional activators and, hence, are major drivers in reprogramming the plant for the benefit of the pathogen. TALEs possess a highly repetitive DNA-binding domain of typically 34 amino acid (AA) tandem repeats, where AA 12 and 13, termed repeat variable di-residue (RVD), determine target specificity. Different Xanthomonas strains possess different repertoires of TALEs. Here, we study the evolution of TALEs from the level of RVDs determining target specificity down to the level of DNA sequence with focus on rice-pathogenic Xanthomonas oryzae pv. oryzae (Xoo) and Xanthomonas oryzae pv. oryzicola (Xoc) strains. We observe that codon pairs coding for individual RVDs are conserved to a similar degree as the flanking repeat sequence. We find strong indications that TALEs may evolve 1) by base substitutions in codon pairs coding for RVDs, 2) by recombination of N-terminal or C-terminal regions of existing TALEs, or 3) by deletion of individual TALE repeats, and we propose possible mechanisms. We find indications that the reassortment of TALE genes in clusters is mediated by an integron-like mechanism in Xoc. We finally study the effect of the presence/absence and evolutionary modifications of TALEs on transcriptional activation of putative target genes in rice, and find that even single RVD swaps may lead to considerable differences in activation. This correlation allowed a refined prediction of TALE targets, which is the crucial step to decipher their virulence activity. SN - 1759-6653 UR - https://www.unboundmedicine.com/medline/citation/28637323/Evolution_of_Transcription_Activator_Like_Effectors_in_Xanthomonas_oryzae_ L2 - https://academic.oup.com/gbe/article-lookup/doi/10.1093/gbe/evx108 DB - PRIME DP - Unbound Medicine ER -