Identification of Rice B12D Gene Family and Expression Analysis under Submergence Stress

doi:10.15933/j.cnki.1004-3268.2024.12.004

Abstract

Abstract: In order to better understand the function of rice B12D gene，the genome‑wide identification and bioinformatics analysis of rice B12D gene family members were done，and the expression difference of B12D gene in rice（Nipponbare）and upland rice（Kunhan 1）under submergence stress was analyzed by real‑time fluorescence quantitative PCR（qRT‑PCR）.Finally，the possible interaction proteins of B12D were found by Alphafold analysis. The results showed that there were six B12D genes in rice genome，which were distributed on three chromosomes.The number of amino acids of B12D protein ranged from 89 aa to 98 aa，and the isoelectric point ranged from 9.65 to 10.34，which was alkaline.Except that OsB12D3 was located in the cell membrane，the other five B12D proteins were located in mitochondria.The B12D gene family had only one pairs of collinearity genes between Arabidopsis thaliana and rice，and three pairs of collinearity genes between rice and maize.In addition，OsB12D1 gene and OsB12D2 genes had a collinearity relationship with OsB12D3 gene.The protein sequence of rice B12D family had high homology and strong conservation.The promoter of rice B12D gene family contained a large number of light response elements，hormone response elements，stress response elements and development related elements.The expression levels of six B12D genes were different in different tissues，OsB12D1 and OsB12D2 genes were mainly expressed in roots；OsB12D3 gene was mainly expressed in ovary，embryo and endosperm；OsB12D4 gene was highly expressed in most tissues；OsB12D5 and OsB12D6 genes were significantly expressed in stamens，the expression level of OsB12D5 gene was lower，the expression level of OsB12D6 gene was higher，and there were different expression levels in other tissues for OsB12D6 gene.The expression levels of OsB12D1 and OsB12D2 genes in Nipponbare were significantly higher than that in Kunhan 1，the increase of OsB12D1and OsB12D2 gene expression levels after submergence stress was higher than that in Kunhan 1，and the decrease of ATP content was lower than that in Kunhan 1.Rice B12D interacted with heme C and cytochrome C1.In summary，the rice B12D gene family may play an important role in rice growth and development，response to submergence stress and so on.

Key words: Rice, B12D gene family, Identification, Submergence stress, Expression mode, Interacting protein

摘要： 为更好地了解水稻B12D基因功能，对水稻B12D基因家族成员进行全基因组鉴定，并进行生物信息学分析，通过实时荧光定量PCR（qRT-PCR）分析B12D基因在淹水胁迫下水稻（日本晴）和旱稻（鲲旱1号）中的表达差异，最后通过Alphafold分析寻找B12D可能的互作蛋白质。结果表明，水稻基因组中共包含6个B12D基因，分布于3条染色体上；B12D蛋白氨基酸数目介于89~98 aa，等电点介于9.65~10.34，呈碱性。除OsB12D3定位于细胞膜外，其余5个B12D蛋白均定位于线粒体。B12D基因家族在拟南芥和水稻之间仅存在1对共线性基因，在水稻和玉米之间存在3对共线性基因；此外，OsB12D1基因与OsB12D2基因这对串联复制体与OsB12D3基因存在共线性关系。水稻B12D家族蛋白质序列同源性较高，保守性较强。水稻B12D基因家族成员启动子含有大量光响应元件、激素响应元件、胁迫响应元件和发育相关元件。6个B12D基因在不同组织的表达强度不同，OsB12D1、OsB12D2 基因主要在根中表达；OsB12D3基因主要在子房、胚和胚乳中表达；OsB12D4基因在大部分组织中均高表达；OsB12D5和OsB12D6基因均在雄蕊中有明显表达，其中OsB12D5基因表达水平较低，OsB12D6基因表达水平较高，且后者在其他组织中也有不同水平的表达。日本晴胚芽中OsB12D1和OsB12D2基因表达量均显著高于鲲旱1号，且淹水胁迫后OsB12D1和OsB12D2基因表达量升高幅度高于鲲旱1号，ATP含量下降幅度低于鲲旱1号。水稻B12D蛋白与血红素C和细胞色素C1存在互作。综上，水稻B12D基因家族在稻类生长发育、应对淹水胁迫等方面可能具有重要作用。

关键词: 水稻, B12D基因家族, 鉴定, 淹水胁迫, 表达模式, 互作蛋白

CLC Number:

S511

ZHANG Zhaoran, ZHU Boyi, GAO Song, LI Zhaowei. Identification of Rice B12D Gene Family and Expression Analysis under Submergence Stress[J]. Journal of Henan Agricultural Sciences, 2024, 53(12): 31-42.

张兆冉, 朱博艺, 高松, 李朝炜. 水稻B12D 基因家族鉴定与淹水胁迫下表达分析[J]. 河南农业科学, 2024, 53(12): 31-42.

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