水稻IDD基因家族的全基因组鉴定及综合分析
收稿日期: 2024-01-01
修回日期: 2024-03-18
网络出版日期: 2024-11-15
基金资助
国家自然科学基金资助项目(32060477);江西省自然科学基金资助项目(20202BAB215001);水稻生物学国家重点实验室开放课题(20200108)
Genome-wide Identification and Comprehensive Analysis of IDD Gene Family in Rice
Received date: 2024-01-01
Revised date: 2024-03-18
Online published: 2024-11-15
【目的】明确植物特异转录因子OsIDD基因家族成员特征特性，验证其表达模式，为深入研究水稻IDD基因家族生物学功能奠定基础。【方法】通过Pfam鉴定与明确水稻IDD家族成员，对其核酸与蛋白序列特征、蛋白结构、系统发育与共线性、启动子元件进行综合分析；通过RT-PCR技术验证OsIDD基因在各组织、不同激素处理及不同非生物胁迫下的表达模式。【结果】发现OsIDD家族具有15个成员，为3个亚家族，在染色体上呈不均匀分布，N端均具有核定位信号及高度保守的ID结构域。多重序列比对及motif分析表明其在各个类型中相对保守，与玉米IDD基因家族共线性分析表明两个物种间具有高度同源性。芯片及RT-PCR分析发现OsIDD主要在穗及发育胚乳中表达量较高，其启动子序列均包含激素/胁迫响应顺式元件。【结论】本研究对15个OsIDD成员进行了综合分析，OsIDD结构保守，与ZmIDD共线性强，主要在穗及发育胚乳组织中高表达，可能参与不同激素及多种非生物逆境胁迫响应过程。
钟智慧, 秦璐, 黎志力, 杨珍, 贺晓鹏, 蔡怡聪 . 水稻IDD基因家族的全基因组鉴定及综合分析[J]. 中国水稻科学, 2024 , 38(6) : 638 -652 . DOI: 10.16819/j.1001-7216.2024.240101
【Objective】To clarify the characteristics and verify the expression patterns of IDD gene family members in rice, which are plant-specific transcription factors, in order to further investigate the biological functions of OsIDD.【Method】The IDD family members in rice were identified using Pfam, followed by a comprehensive analysis of their nucleic acid and protein sequence features, protein structure, phylogeny, collinearity, and promoter elements. RT-PCR was employed to verify the expression patterns of the OsIDD gene in various tissues, under different hormone treatments, and in response to various abiotic stresses.【Result】The OsIDD family consists of 15 members falling into three subfamilies, which are unevenly distributed across the chromosomes. All members possess nuclear localization signals and highly conserved ID structural domains at the N-terminus. Multiple sequence alignment and motif analysis indicate that these sequences are relatively conserved among different types. Collinearity analysis with the ZmIDD gene family reveals a high degree of homology between the two species. Microarray and RT-PCR analyses showed that OsIDD is predominantly expressed in the panicle and developing endosperm, with its promoter sequences containing hormone and stress-responsive cis-elements.【Conclusion】A comprehensive analysis of the 15 OsIDD members demonstrated structural conservation, strong collinearity with ZmIDD, and high expression levels in panicle and developing endosperm. These findings suggest that OsIDD may be involved in the response to different hormones and various abiotic stresses.
Key words： rice; IDD gene family; comprehensive analysis; expression pattern analysis
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