玉米KNOX基因家族鉴定及组织和逆境表达分析
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国家自然科学基金(31701328);


Genomewide Identification and Expression Profile of KNOX Gene Family in Zea mays
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    摘要:

    为揭示玉米转录因子KNOX家族基因功能,采用生物信息学手段在玉米基因组水平鉴定KNOX家族成员,并对家族基因逆境和组织表达谱进行分析。结果显示:(1)玉米基因组有22个ZmKNOX基因,根据其在染色体上的位置依次命名为ZmKNOX1ZmKNOX22;编码蛋白质亚细胞定位预测发现,除ZmKNOX5、ZmKNOX11、ZmKNOX12和ZmKNOX15定位于线粒体以及ZmKNOX7定位于细胞质外,其余家族蛋白质均定位于细胞核;进化树分析表明,大多数ZmKNOX与高粱聚在一个分支,表明两物种系统发育关系较近,且基因结构与蛋白进化分类存在一定关联性。(2)全生育期组织表达分析发现,ZmKNOX具有不同的表达模式,且基因的生育期表达模式与蛋白进化分类具有一定相关性。其中ZmKNOX13、ZmKNOX20、ZmKNOX1和ZmKNOX21属全生育期组成型高表达,ZmKNOX3、ZmKNOX5、ZmKNOX6和ZmKNOX14为全生育期组成型低表达,而ZmKNOX4、ZmKNOX8、ZmKNOX9和ZmKNOX1719的表达具有阶段性和组织特异性,并在胚胎、种子萌发时期、胚芽鞘、茎尖、茎节间、顶端分生组织和花序中较高表达;进一步对生育期数据进行共表达分析发现,ZmKNOX13所在的与根分生发育期相关性最高的模块,与蛋白质泛素化生物学过程密切相关。(3)在盐、冷、热和UV处理下,有8个ZmKNOX家族基因表现出不同的响应模式,但基因表达量变化不大。其中冷处理下ZmKNOX6表达明显上调,热处理下ZmKNOX14明显下调表达,盐胁迫下ZmKNOX13明显上调表达而ZmKNOX13和ZmKNOX14却明显下调,上述3个基因(除ZmKNOX13)均具有生育期低表达的特点。(4)测序数据分析发现,盐处理下叶片中上调的ZmKNOX3和ZmKNOX13基因,根系中下调的ZmKNOX3、ZmKNOX6和ZmKNOX17基因的表达模式基本一致,在不同处理时间ZmKNOX3在叶片和根中均稳定表达,但表达方式相反。研究表明,玉米ZmKNOX家族基因在玉米生长发育和逆境响应过程中具有重要作用。

    Abstract:

    To reveal the function of the maize transcription factor KNOX, this study used the bioinformatics method to identify the KNOX family members at the maize genome level and analyzed the expression profile of family gene response to stress and the tissuespecific. The results showed that: (1) there were 22 ZmKNOX genes in the maize genome named ZmKNOX1ZmKNOX22 according to their positions on the chromosome. The subcellular localization prediction of coding proteins showed that all the other family proteins located in the nucleus, except ZmKNOX5, ZmKNOX11, ZmKNOX12, and ZmKNOX15, found in mitochondria and ZmKNOX7 in the cytoplasm. The phylogenetic tree analysis showed that most ZmKNOX and sorghum were clustered in the same branch, indicating that the phylogenetic relationship between the two species was close. There was a specific correlation between the gene structure and the protein evolutionary classification. (2) The tissue expression profile analysis of the whole growth period showed that ZmKNOX had different expression patterns. The expression patterns of the genes during the growth period were correlated with the evolutionary classification of proteins. ZmKNOX13, ZmKNOX20, ZmKNOX1, and ZmKNOX21 were constitutively high in the whole growth period, while ZmKNOX3, ZmKNOX5, ZmKNOX6, and ZmKNOX14 were constitutively low in the whole growth period. ZmKNOX4, ZmKNOX8, ZmKNOX9, and ZmKNOX1719 expressed in certain stages and tissues of plant growth and development, including the embryo, seed germination stage, germ sheath, shoot tip, shoot internode, apical meristem, and inflorescence. Further coexpression analysis of the growth period data showed that the module in which ZmKNOX13 was closely related to the biological process of ubiquitination. (3) Eight ZmKNOX family genes showed different response patterns under salt, cold, heat, and UV treatments, while the gene expression levels did not change significantly. Among them, ZmKNOX6 was significantly upregulated under cold treatment, ZmKNOX14 was significantly downregulated under heat treatment, ZmKNOX13 was significantly upregulated, while ZmKNOX3 and ZmKNOX14 were significantly downregulated under salt stress. All the above three genes were low expression during the growth period. (4) The sequencing data analysis showed that the expression patterns of upregulated ZmKNOX3 and ZmKNOX13 genes in leaves and downregulated ZmKNOX3, ZmKNOX6, and ZmKNOX17 genes in roots were the same under salt treatment. ZmKNOX3 was stable in leaves and roots at different treatment time points, but the expression patterns were opposite. These results showed that ZmKNOX family genes play an essential role in maize growth, development and stress response.

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赵长江,宋巨奇,都梦翔,等.玉米KNOX基因家族鉴定及组织和逆境表达分析[J].西北植物学报,2021,41(7):1109-1119

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  • 在线发布日期: 2021-08-19
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