茄科作物基因组内源病毒元件的分析鉴定
Analysis and Identification of Endogenous Viral Elements in Solanaceous Crop Genome
陈汝豪 1孟繁烨 1杨曼华 1陈家茹 1邹莹 2宋波涛 1马恢 3聂碧华1
作者信息
- 1. 果蔬园艺作物种质创新与利用全国重点实验室/农业农村部马铃薯生物学与生物技术重点实验室/华中农业大学园艺林学学院,武汉 430070
- 2. 恩施土家族苗族自治州农业科学院/湖北恩施中国南方马铃薯研究中心,湖北恩施 445000
- 3. 河北省张家口市农业科学院,河北张家口 075000
- 折叠
摘要
利用6个茄科物种的35个公开基因组数据进行了茄科基因组内源性病毒元件(endogenous viral element,EVE)的挖掘.结果发现,主要来源于花椰菜花叶病毒科(Caulimoviridae)等共17种疑似的植物EVE.其中,烟草脉明病毒(tobacco vein clearing virus,TVCV)序列以大片段的形式普遍存于几乎所有收集的茄科植物基因组中,含量大约在0.01％～0.32％,片段平均长度范围为500～2 300 bp,序列数量范围为200～5 000条.以马铃薯DM1-3基因组为例分析这些TVCV内源序列的分布和组成,发现内源性TVCV序列在马铃薯DM 1-3的12条染色体上分散排布,平均每条染色体上有57条序列;这些内源病毒序列与TVCV基因组比对,虽然它们无法覆盖TVCV完整基因组序列,但是能够覆盖完整的编码区.进一步通过RT-PCR和原位杂交定位,验证了 TVCV在马铃薯材料中的存在和分布.
Abstract
In this study,an analysis of endogenous virus elements(EVEs)were conducted from 35 open genome data sequences of six Solanaceae species,resulting in the identification of 17 suspected plant EVEs primarily from Caulmoviridae.The analysis revealed that TVCV sequences were present as large fragments in nearly all sampled Solanaceae genomes,with a content ranging from 0.01％to 0.32％,an average length of 500 bp to 2 300 bp and a total number of sequences ranging from 200 to 5 000.Additionally,the distribution and composition of endogenous TVCV sequences were investigated in the potato DM1-3 genome.The results found they were dispersed across 12 chromosomes with an average of 57 sequences on each chromosome.These endogenous sequences were compared with the TVCV genome,and although they did not cover the complete genome sequence of TVCV,they covered the complete coding region.Furthermore,the presence and distribution of TVCV were comfirmed in potato materials by RT-PCR followed by in situ hybridization.
关键词
茄科作物/马铃薯/基因组/内源病毒元件/烟草脉明病毒Key words
Solanaceous/potato/genomes/endogenous viral element/tobacco vein clearing virus引用本文复制引用
基金项目
国家自然科学基金项目(31971989)
现代农业产业技术体系建设专项(CARS-09-P07)
出版年
2024
NETL
NSTL
维普
万方数据