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Journal of Integrative Agriculture  2017, Vol. 16 Issue (07): 1576-1591    DOI: 10.1016/S2095-3119(16)61521-6
Animal Science · Veterinary Science Advanced Online Publication | Current Issue | Archive | Adv Search |
In silico genome-wide identification, phylogeny and expression analysis of the R2R3-MYB gene family in Medicago truncatula
ZHENG Xing-wei, YI Deng-xia, SHAO Lin-hui, LI Cong
Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, P.R.China
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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.  
Keywords:  R2R3-MYB        Medicago truncatula        gene family        stress response        function prediction  
Received: 03 June 2016   Accepted: 06 July 2017

This work was supported by the National Natural Science Foundation of China (31372362).

Corresponding Authors:  Correspondence LI Cong, Tel: +86-10-62815998, E-mail:    
About author:  ZHENG Xing-wei, E-mail:;

Cite this article: 

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

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