In silico genome-wide identification, phylogeny and expression analysis of the R2R3-MYB gene family in Medicago truncatula

doi:10.1016/S2095-3119(16)61521-6

摘要/Abstract

Abstract: The R2R3-MYB genes make up one of the largest transcription factor families in plants, and play regulatory roles in various biological processes such as development, metabolism and defense response. Although genome-wide analyses of this gene family have been conducted in several species, R2R3-MYB genes have not been systematically analyzed in Medicago truncatula, a sequenced model legume plant. Here, we performed a comprehensive, genome-wide computational analysis of the structural characteristics, phylogeny, functions and expression patterns of M. truncatula R2R3-MYB genes. DNA binding domains are highly conserved among the 155 putative MtR2R3-MYB proteins that we identified. Chromosomal location analysis revealed that these genes were distributed across all eight chromosomes. Results showed that the expansion of the MtR2R3-MYB family was mainly attributable to segmental duplication and tandem duplication. A comprehensive classification was performed based on phylogenetic analysis of the R2R3-MYB gene families in M. truncatula, Arabidopsis thaliana and other plant species. Evolutionary relationships within clades were supported by clade-specific conserved motifs outside the MYB domain. Species-specific clades have been gained or lost during evolution, resulting in functional divergence. Also, tissue-specific expression patterns were investigated. The functions of stress response-related clades were further verified by the changes in transcript levels of representative R2R3-MYB genes upon treatment with abiotic and biotic stresses. This study is the first report on identification and characterization of R2R3-MYB gene family based on the genome of M. truncatula, and will facilitate functional analysis of this gene family in the future.

Key words: R2R3-MYB , Medicago truncatula , gene family , stress response , function prediction

. [J]. Journal of Integrative Agriculture, 2017, 16(07): 1576-1591.

ZHENG Xing-wei, YI Deng-xia, SHAO Lin-hui, LI Cong . In silico genome-wide identification, phylogeny and expression analysis of the R2R3-MYB gene family in Medicago truncatula[J]. Journal of Integrative Agriculture, 2017, 16(07): 1576-1591.

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