落叶松-杨栅锈菌全基因组水平简单重复序列(SSRs)特征分析及新型SSR标记开发  

Characterization of simple sequence repeats(SSRs)and development of novel SSR markers based on the whole genome of Melampsora larici-populina

作　　者：周显臻 王华 曹支敏[1] 于丹[1] ZHOU Xianzhen;WANG Hua;CAO Zhimin;YU Dan(College of Forestry,Northwest A&F University,Yangling 712100,China;Department of Forestry,Fujian Forestry Vocational Technical College,Nanping 353000,China)

机构地区：[1]西北农林科技大学林学院,杨凌712100 [2]福建林业职业技术学院林学系,南平353000

出　　处：《植物病理学报》2025年第2期251-260,共10页Acta Phytopathologica Sinica

基　　金：国家自然科学基金(31870630);陕西省自然科学基础研究计划(2018JM3043)。

摘　　要：由落叶松-杨栅锈菌(Melampsora larici-populina)侵染杨树叶片引起的杨树叶锈病是一种分布广泛且危害严重的杨树叶部病害。简单重复序列(Simple sequence repeats,SSRs)广泛分布于基因组中,不仅常作为遗传标记用于群体遗传学分析,也在基因和基因组的进化中发挥重要作用。本研究针对M.larici-populina在全基因组水平鉴定出10628个SSR位点,发现单核苷酸重复占比最大,为53.2%,并且A/T重复是最丰富的碱基类型。SSR位点频率和分布类型在基因组不同区域中各具特色,如3'转录非翻译区(3'UTR)的SSR频率最高,平均2.16 kb分布一个SSR位点,在基因编码区中三核苷酸重复是主要的类型。富集分析显示,与信号传递和细胞周期相关基因中出现SSR的几率更高。结合M.larici-populina全基因组InDel信息,预测出3126个具有潜在多态性的SSR位点,随机选取10个位点设计引物进行多态性验证,显示7个SSR标记具有较高多态信息含量及3个SSR标记具有一定多态信息含量。研究结果有助于从全基因组水平上了解M.larici-populina的SSR特征,同时为后续该锈菌群体遗传学研究提供新颖且高效的SSR标记。Melampsora larici-populina can cause poplar leaf rust which is a widely distributed and severely harmful poplar foliar disease.Simple sequence repeats(SSRs)are widely distributed in genomes and serve not only as genetic markers for population genetics analysis but also play an important role in the evolution of genes and genomes.In this study,a total of 10628 SSR loci were identified at the whole-genome level of M.larici-populina,the proportion of mono-nucleotide repeat is the highest,accounting for 53.2%,and the A/T repeat is the most abundant base type.The frequency and distribution types of the SSR loci have their own characteristics in different regions of the M.larici-populina genome.The highest SSR frequency was observed in the 3'untranslated region(3'UTR),one SSR locus is distributed per 2.16 kb,and the tri-nucleotide repeat is the predominant type in coding regions.The enrichment analyses revealed a higher likelihood of SSRs in genes related to signal transduction and cell cycle.Based on the genome-wide InDel information of M.larici-populina,3126 potential polymorphic SSR loci were predicted,then 10 randomly selected loci were used to design primers for polymorphism verification,and finally,seven SSR markers with high polymorphic information content and three SSR markers with moderate polymorphic information content were found.The results help us to understand the SSR characteristics of M.larici-populina at the whole genome level,and provide novel and efficient SSR markers for subsequent population genetic studies of this pathogen.

关 键 词：落叶松-杨栅锈菌 SSR特征 多态性预测 SSR标记 

分 类 号：S763.11[农业科学—森林保护学]