2024年7月21日 星期日
石榴ATG基因家族鉴定及其在非生物胁迫下的表达模式分析
Identification of ATG gene family of Punica granatum and analysis on their expression pattern under abiotic stress
2022年 第31卷 第5期 页码[37-49]    下载全文[8.8MB]  
摘要

利用生物信息学方法,从石榴(Punica granatum Linn.)品种‘突尼斯’(‘Tunisia’)基因组中鉴定自噬相关基因(ATG)家族成员,并对其蛋白质理化性质、染色体定位、基因结构、系统进化、共线关系和表达模式进行了分析。结果表明:从石榴基因组中共鉴定出58个ATG基因,定位在8条染色体上。58个石榴ATG家庭成员可分为6个亚族。58个石榴ATG基因中3对基因存在共线关系;石榴与拟南芥〔Arabidopsis thaliana (Linn.) Heynh.〕和葡萄(Vitis vinifera Linn.)ATG基因家族成员间分别存在45和41对共线关系。转录组数据挖掘显示:PgVTI12b-1、PgATG1b-1、PgATG8h-1、PgATG8c-2和PgATG8c-3 5个基因在ABA缓解干旱胁迫的响应中差异表达;NaCl胁迫下,石榴根和叶中分别有11和8个ATG基因差异表达,且PgATG6b、PgTORb和PgATG1b-2基因在根和叶中均差异表达。实时荧光定量PCR验证发现石榴ATG基因的表达模式与转录组结果基本一致。综合分析结果表明:PgVTI12b-1、PgATG1b-1、PgATG8h-1、PgATG8c-2和PgATG8c-3基因参与石榴叶对ABA缓解干旱胁迫的响应,而PgATG6b、PgTORb和PgATG1b-2基因则同时参与石榴根和叶对NaCl胁迫的响应。

Abstract

The autophagy-related gene (ATG) family members were identified from the genome of cultivar ‘Tunisia’ of Punica granatum Linn. by using the bioinformatics method, and their protein physicochemical properties, chromosome location, gene structure, phylogeny, collinear relationship, and expression pattern were analyzed. The results show that 58 ATG genes are identified from the genome of P. granatum in total, which are located on 8 chromosomes. Fifty-eight ATG family members of P. granatum can be divided into 6 sub-families. Three pairs of genes among 58 ATG genes of P. granatum have collinear relationships; there are 45 and 41 pairs of collinear relationships between ATG gene family members of P. granatum and those of Arabidopsis thaliana (Linn.) Heynh. and Vitis vinifera Linn. respectively. The mining of transcriptomic data shows that 5 genes namely PgVTI12b-1, PgATG1b-1, PgATG8h-1, PgATG8c-2, and PgATG8c-3 are differentially expressed in response to ABA-alleviating drought stress; under NaCl stress, 11 and 8 genes are differentially expressed in root and leaf of P. granatum, and PgATG6b, PgTORb, and PgATG1b-2 genes are all differentially expressed in root and leaf of P. granatum. The real-time fluorescence quantitative PCR validation shows that the expression patterns of ATG genes of P. granatum are basically consistent with the transcriptome result. The comprehensive analysis result shows that PgVTI12b-1, PgATG1b-1, PgATG8h-1, PgATG8c-2, and PgATG8c-3 genes are involved in the response of leaf of P. granatum to ABA-alleviating drought stress, while PgATG6b, PgTORb, and PgATG1b-2 genes are simultaneously involved in the response of root and leaf of P. granatum to NaCl stress.

关键词石榴; 自噬相关基因(ATG); 基因家族鉴定; 非生物胁迫; 表达模式
Key wordsPunica granatum Linn.; autophagyrelated gene (ATG); gene family identification; abiotic stress; expression pattern
作者刘司瑜, 林艺灵, 王令宇, 夏家欣, 杨毓贤, 房经贵, 王晨, 上官凌飞
所在单位南京农业大学园艺学院 江苏省果树品种改良与种苗繁育工程中心, 江苏 南京 210095
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基金项目江苏省自然科学基金面上项目(BK20201321); 江苏省博士后科研资助计划项目(2020Z052); 江苏省农业科技自主创新项目〔CX(20)3016〕; 江苏高校优势学科建设工程资助项目