谷子PLATZ转录因子基因家族的鉴定和分析
收稿日期: 2022-07-05
录用日期: 2022-10-09
网络出版日期: 2022-11-02
基金资助
国家自然科学基金(32001608);省部级重点实验室开放基金(202204010910001-02);山西农业大学博士科研启动项目(2021BQ112)
Genome-wide Identification and Analysis of PLATZ Transcription Factor Gene Family in Foxtail Millet
Received date: 2022-07-05
Accepted date: 2022-10-09
Online published: 2022-11-02
PLATZ转录因子家族是一类植物特异性锌依赖DNA结合蛋白, 在植物生长发育和抗逆过程中发挥不可或缺的作用。然而, 对于谷子(Setaria italica) PLATZ家族基因尚未进行系统研究。在谷子基因组中鉴定出17个PLATZ基因并对其进行系统命名。通过系统发育分析将SiPLATZ基因划分为5个亚家族, 同一亚家族成员具有相似的基因结构和保守基序。顺式作用元件分析表明, SiPLATZ基因可能在籽粒胚乳发育和多种抗逆反应中发挥作用。Ka/Ks分析表明, 重复基因受到纯化选择。SiPLATZ基因在不同组织和发育阶段的表达存在显著差异, 主要包括在根、叶和茎中高表达, 以及在穗和籽粒中高表达两类, 这体现出SiPLATZ基因生理功能的复杂性, 其可能参与调节籽粒生长和多种抗逆反应。此外, 结合WGCNA分析构建的共表达网络, 发现SiPLATZ6、SiPLATZ8、SiPLATZ9和SiPLATZ11可能是谷子产量遗传改良和功能基因研究的候选基因。研究结果为深入揭示PLATZ转录因子在谷子生长发育中的生物学功能奠定了基础。
孙蓉, 杨宇琭, 李亚军, 张会, 李旭凯 . 谷子PLATZ转录因子基因家族的鉴定和分析[J]. 植物学报, 2023 , 58(4) : 548 -559 . DOI: 10.11983/CBB22147
The PLATZ transcription factor family is a class of plant-specific zinc-dependent DNA-binding proteins that play an indispensable role in plant growth and development and stress resistance. However, the PLATZ family genes have not been systematically analyzed in foxtail millet (Setaria italica). In this study, 17 PLATZ genes in the foxtail millet genome were identified and systematically named. The SiPLATZ genes were divided into five subfamilies by phylogenetic analysis, and members of the same subfamily have similar gene structures and motifs. Cis-acting element analysis demonstrated that the SiPLATZ genes may play a role in endosperm development and various stress-resistant responses. The Ka/Ks ratio analysis indicates that duplicated genes are subject to purifying selection. There were significant differences in the expression of SiPLATZ genes in different tissues and developmental stages, which were mainly divided into two categories: high expression in roots, leaves, and stems, and in spikes and seeds. This reflects the complexity of the physiological functions of SiPLATZ genes and their possible involvement in regulating seed growth and multiple stress responses. In addition, the co-expression network constructed in combination with WGCNA analysis revealed that SiPLATZ6, SiPLATZ8, SiPLATZ9 and SiPLATZ11 may be the candidates for genetic improvement of foxtail millet yield and functional gene research. These results lay the foundation for further studies on the biological functions of PLATZ transcription factors in foxtail millet growth and development.
Key words： PLATZ; foxtail millet; genome-wide identification; tissue specific expression; WGCNA
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