Genome-wide analysis of MYB transcription factors and their responses to salt stress in Casuarina equisetifolia.
Genome-wide analysis of MYB transcription factors and their responses to salt stress in Casuarina equisetifolia.
复制标题
木麻黄 MYB 转录因子及其对盐胁迫的响应的全基因组分析
DOI：
10.1186/s12870-021-03083-6
复制
发表时间：
2021-07-08
影响因子：
5.3
通讯作者：
Zhong C
中科院分区：
文献类型：
--
作者：
Wang Y;Zhang Y;Fan C;Wei Y;Meng J;Li Z;Zhong C
背景
MYB转录因子是一类能与启动子区特异性相互作用的DNA结合蛋白。MYB转录因子广泛参与植物的生长发育、次生代谢、逆境应答和激素信号转导等过程。然而，目前还没有对木麻黄MYB家族进行全面的生物信息学分析的报道。
结果
利用生物信息学方法从木麻黄基因组数据库中筛选出182个MYB转录因子，其中1R-MYB 69个，R2R3-MYB 107个，R1R2R3-MYB 4个，4R-MYB 2个。梭基于系统发育拓扑学和拟南芥MYB超家族的分类，将木贼R2R3-MYB基因分为29个组，而将其余MYB基因（1R-MYB、R1R2R3-MYB和4R-MYB）分为19个组。此外，保守基序和基因结构分析表明，CeqMYBs的成员被分为相同的亚群，大多数相似的基因结构。此外，通过WebLogo分析，发现CeqMYBs的R2和R3结构域中存在许多保守的氨基酸，尤其是色氨酸残基（W），其中R2重复序列中有3个保守的W，R3重复序列中有2个保守的W。结合启动子和GO注释分析，推测CeqMYBs的各种生物学功能，从而筛选出32个MYB基因，利用qPCR分析技术进一步探讨其对盐胁迫的响应。大多数CeqMYB基因在多次盐处理后受到差异调节。
结论
通过GO注释将7个基因（CeqMYB164、CeqMYB4、CeqMYB53、CeqMYB32、CeqMYB114、CeqMYB71和CeqMYB177）归属于"盐胁迫响应"。其中，CeqMYB4在不同盐处理下表达量均上调，表明CeqMYB4可能参与了盐胁迫的响应。这些结果为C.为进一步研究盐胁迫机理提供候选基因。
Background
MYB transcription factors are a kind of DNA binding protein that can specifically interact with the promoter region. Members of MYB TFs are widely involved in plant growth and development, secondary metabolism, stress response, and hormone signal transduction. However, there is no report of comprehensive bioinformatics analysis on the MYB family of Casuarina equisetifolia.
Results
In this study, bioinformatics methods were used to screen out 182 MYB transcription factors from the Casuarina equisetifolia genome database, including 69 1R-MYB, 107 R2R3-MYB, 4 R1R2R3-MYB, and 2 4R-MYB. The C. equisetifolia R2R3-MYB genes were divided into 29 groups based on the phylogenetic topology and the classification of the MYB superfamily in Arabidopsis thaliana, while the remaining MYB genes (1R-MYB, R1R2R3-MYB, and 4R-MYB) was divided into 19 groups. Moreover, the conserved motif and gene structure analysis shown that the members of the CeqMYBs were divided into the same subgroups with mostly similar gene structures. In addition, many conserved amino acids in the R2 and R3 domains of CeqMYBs by WebLogo analysis, especially tryptophan residues (W), with 3 conserved W in R2 repeat and 2 conserved W in R3 repeat. Combining promoter and GO annotation analysis, speculated on the various biological functions of CeqMYBs, thus 32 MYB genes were selected to further explore its response to salt stress by using qPCR analysis technique. Most CeqMYB genes were differentially regulated following multiple salt treatments.
Conclusions
Seven genes (CeqMYB164, CeqMYB4, CeqMYB53, CeqMYB32, CeqMYB114, CeqMYB71 and CeqMYB177) were assigned to the “response to salt stress” by GO annotation. Among them, the expression level of CeqMYB4 was up-regulated under various salt treatments, indicating CeqMYB4 might participated in the response to salt stress. Our results provide important information for the biological function of C. equisetifolia, as well as offer candidate genes for further study of salt stress mechanism.