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| 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.
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Received: 03 June 2016
Accepted:
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| Fund: This work was supported by the National Natural Science Foundation of China (31372362). |
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Corresponding Authors:
Correspondence LI Cong, Tel: +86-10-62815998, E-mail: licong0520@sina.com
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| About author: ZHENG Xing-wei, E-mail: smilezxw@126.com; |
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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