摘要
Dicers酶类、Argonautes蛋白以及RNA依赖的RNA聚合酶(RNA-dependent RNA polymerases,RDRs)是RNA干扰(RNA interference,RNAi)机制中重要的核心蛋白,但在谷子(Setaria italica)中尚无系统报道。为了研究谷子中与RNA干扰相关酶类基因的特征,本研究对谷子的RNA干扰相关酶类基因家族进行了蛋白质理化性质、亚细胞定位预测、蛋白质保守基序、基因保守结构域、基因家族成员间系统发育关系以及组织特异性表达谱分析。研究共发现24个与谷子RNA干扰相关酶类基因,包括7个DCL(Dicers),13个AGO(Argonautes),4个RDRs。系统进化树分析表明,这些家族被分为3个进化支。同一家族基因成员具有共同的保守结构域。虽然大多数基因可同时在不同发育时期的叶、茎和穗中表达,但其在各时期的穗和茎中的表达量最高。本研究为详细探讨这些基因在谷子生殖和生长发育中的表观遗传修饰作用提供了理论依据。
Dicers,argonautes,and RNA-dependent RNA polymerases(RDRs)are core and important components in RNA interference(RNAi)pathways,but there is no systematic report about them in Setaria italica(foxtail millet).In order to elucidate the characteristics of these genes related to RNA interference in foxtail millet,this study undertook a complete analysis of these gene families in S.italica,which included protein physical and chemical properties,prediction of subcellular location,protein conservative motif analysis,gene conserved domains,phylogenetic relatedness,and transcriptome expression profiling.A total of 24 RNA interference-related enzyme genes were identified.The group contained 7 dicers,13 argonautes,and 4 RDRs.The phylogenetic tree analysis revealed that these genes cluster into three clades.Genes in the same clades have common conserved domains.Although most of the genes can be expressed simultaneously in leaves,stems,and panicles at six different development stages,the expression is most significant during the different development stages of the panicles and stem.This study provides a theoretical basis for further studies,and improves understanding about the function of epigenetic modification during the reproduction and development of S.italica.
作者
张司雯
邓欣
王龙
罗皓天
王禹茜
王月
李清竹
王红艳
ZHANG Siwen;DENG Xin;WANG Long;LUO Haotian;WANG Yuqian;WANG Yue;LI Qingzhu;WANG Hongyan(Laboratory of Plant Epigenetics and Evolution/School of Life Science,Liaoning University,Shenyang 110036,Liaoning,China)
出处
《草业科学》
CAS
CSCD
北大核心
2021年第7期1380-1392,共13页
Pratacultural Science
基金
国家自然科学基金(31100172)
辽宁省自然科学基金指导项目(20180550686)
辽宁省教育厅科学研究经费项目(LJC201909)。
关键词
RNA干扰
基因家族
生物信息学
系统进化树
保守结构域
组织特异性表达
谷子
RNA interference
gene family
bioinformatics
phylogenetic tree
conserved domain
tissue specific expression
Setaria italica
