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赵冰雪,聂功平,张小惠,等. 芝麻AP2/ERF基因家族生物信息学鉴定与分析[J]. 应用技术学报,2022,22(4):399-412.. DOI: 10.3969/j.issn.2096-3424.2022.04.018
引用本文: 赵冰雪,聂功平,张小惠,等. 芝麻AP2/ERF基因家族生物信息学鉴定与分析[J]. 应用技术学报,2022,22(4):399-412.. DOI: 10.3969/j.issn.2096-3424.2022.04.018
ZHAO Bingxue, NIE Gongping, ZHANG Xiaohui, HUANG Qingjun. Bioinformatics Identification and Analysis of AP2/ERF Gene Family in Sesame[J]. Journal of Technology, 2022, 22(4): 399-412. DOI: 10.3969/j.issn.2096-3424.2022.04.018
Citation: ZHAO Bingxue, NIE Gongping, ZHANG Xiaohui, HUANG Qingjun. Bioinformatics Identification and Analysis of AP2/ERF Gene Family in Sesame[J]. Journal of Technology, 2022, 22(4): 399-412. DOI: 10.3969/j.issn.2096-3424.2022.04.018

芝麻AP2/ERF基因家族生物信息学鉴定与分析

Bioinformatics Identification and Analysis of AP2/ERF Gene Family in Sesame

  • 摘要: AP2/ERF(APETALA2/ethylene responsive factor)是植物所特有的一类家族转录因子,在控制植物生长发育、参与次级代谢以及抵抗非生物胁迫等方面起重要作用。根据已报道的拟南芥AP2/ERF基因,利用生物信息学手段在最新发布的芝麻(Sesamum indicum L.)参考序列共鉴定出142个AP2/ERF基因,并对其理化性质、系统进化、结构域、保守基序、染色体定位、物种共线性、不同组织的表达特异性以及基因表达对胁迫响应等信息进行分析。根据理化性质分析,将芝麻AP2/ERF基因家族成员编码为121~697个氨基酸,其编码蛋白相对分子量介于13428.04~76020.09 kD之间,理论等电点介于4.50~10.24之间。根据结构域和系统进化分析,将芝麻AP2/ERF蛋白分为4个亚家族,其中AP2包含26个成员、ERF包含116个成员、Soloist包含2个成员以及RAV包含3个成员。其中136个成员不均匀分布于16条染色体上,且集中成簇分布于第1~4和6~12染色体同源群。根据共线性分析,在芝麻染色体上分别有32、49个与大麦、玉米具有共线性的AP2/ERF基因。在演化过程中,芝麻与玉米之间的保守性高于大麦,而与大麦之间的变异性高于玉米。Ⅶ亚组中LOC105157874基因在2个芝麻品种中均上调,可能参与了芝麻响应淹水胁迫调控。为进一步研究芝麻AP2/ERF转录因子家族生物学功能及芝麻抗逆改良提供科学依据。

     

    Abstract: AP2/ERF (APETALA2/ethylene responsive factor) is one of families of transcription factors unique to plants, which plays an important role in controlling plant growth and development, participating in secondary metabolism and resisting abiotic stress. Based on the reported AP2/ERF genes in Arabidopsis thaliana, 142 AP2/ERF genes were identified in the newly published sesame (Sesamum indicum L.) reference sequences by bioinformatics. The physicochemical properties, phylogeny, domains, conserved motifs, chromosome localization, species collinearity, expression specificity in different tissues and gene expression response to stress were analyzed. According to the analysis of physicochemical properties, the AP2/ERF gene family of sesame encodes 121-697 amino acids, the relative molecular weight of the protein is 13428.04-76020.09 KD, and the theoretical isoelectric point is between 4.50 and 10.24. According to the analysis of domain and phylogenetic analysis, the AP2/ERF protein in sesame can be divided into four subfamilies: AP2 contains 26 members, ERF contains 116 members, soloist contains 2 members and Rav contains 3 members. 136 members are unevenly distributed on 16 chromosomes, and are clustered in homologous groups of chromosomes 1-4 and 6-12. According to the collinearity analysis, there are 32 and 49 AP2/ERF genes on Sesame chromosome, which are collinear with barley and maize respectively. In the evolution process, the conservation of AP2/ERF gene with maize is higher than that with barley, and the variability with barley is higher than that with maize. The LOC105157874 gene in subgroup VII was up-regulated in both sesame varieties, which may be involved in the regulation of sesame response to flooding stress and needs further experimental verification.This study provides a scientific basis for further study on the biological function of AP2/ERF transcription factor family and the improvement of sesame stress resistance.

     

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