Identification and molecular characterization of MYB Transcription Factor Superfamily in C4 model plant foxtail millet (Setaria italica L.).
Identification and molecular characterization of MYB Transcription Factor Superfamily in C4 model plant foxtail millet (Setaria italica L.).
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DOI：
10.1371/journal.pone.0109920
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发表时间：
2014
期刊：
影响因子：
3.7
通讯作者：
Prasad M
中科院分区：
文献类型：
--
作者：
Muthamilarasan M;Khandelwal R;Yadav CB;Bonthala VS;Khan Y;Prasad M
MYB蛋白是植物中最大的转录因子家族之一，在多种发育和逆境反应过程中发挥重要作用。考虑到它的重要性，除了小米之外，几乎所有的陆地植物都进行了几次全基因组分析。谷子(Setaria italica L.)是研究谷子和生物能源草系统生物学的模式作物。此外，该作物还以其潜在的非生物抗逆性而闻名。在此背景下，进行了全面的全基因组调查，在谷子中鉴定出209个MYB蛋白编码基因。将209个意大利谷子MYB(SiMYB)基因物理定位于谷子的9条染色体上。基因复制研究表明，基因组中发生了分段复制和串联复制，导致了该基因家族的扩大。蛋白质结构域研究根据存在的MYB重复数将SiMYB蛋白分为三类。系统发育分析将SiMYB分为10个类群(I-X)。基于SiMYB的比较图谱显示，谷子和高粱之间的正交性最大，其次是玉米、水稻和担子。热图分析显示了主要SiMYB基因的组织特异性表达模式。利用qRT-PCR对候选MYB基因在非生物胁迫和激素处理下的表达谱进行了分析，揭示了SiMYB的特异和/或重叠的表达模式。综上所述，本研究为谷子MYB转录因子的进化和功能鉴定提供了基础，以剖析其对环境刺激的响应功能。
MYB proteins represent one of the largest transcription factor families in plants, playing important roles in diverse developmental and stress-responsive processes. Considering its significance, several genome-wide analyses have been conducted in almost all land plants except foxtail millet. Foxtail millet (Setaria italica L.) is a model crop for investigating systems biology of millets and bioenergy grasses. Further, the crop is also known for its potential abiotic stress-tolerance. In this context, a comprehensive genome-wide survey was conducted and 209 MYB protein-encoding genes were identified in foxtail millet. All 209 S. italica MYB (SiMYB) genes were physically mapped onto nine chromosomes of foxtail millet. Gene duplication study showed that segmental- and tandem-duplication have occurred in genome resulting in expansion of this gene family. The protein domain investigation classified SiMYB proteins into three classes according to number of MYB repeats present. The phylogenetic analysis categorized SiMYBs into ten groups (I - X). SiMYB-based comparative mapping revealed a maximum orthology between foxtail millet and sorghum, followed by maize, rice and Brachypodium. Heat map analysis showed tissue-specific expression pattern of predominant SiMYB genes. Expression profiling of candidate MYB genes against abiotic stresses and hormone treatments using qRT-PCR revealed specific and/or overlapping expression patterns of SiMYBs. Taken together, the present study provides a foundation for evolutionary and functional characterization of MYB TFs in foxtail millet to dissect their functions in response to environmental stimuli.
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