基于BSA-seq和RNA-seq挖掘水稻株高相关QTL  

Identification of Rice Plant Height-associated QTL Using BSA-seq and RNA-seq

作　　者：吴元明 林佳怡 柳雨汐 李丹婷 张宗琼 郑晓明[3,4,5] 逄洪波 WU Yuan-ming;LIN Jia-yi;LIU Yu-xi;LI Dan-ting;ZHANG Zong-qiong;ZHENG Xiao-ming;PANG Hong-bo(College of Life Science,Shenyang Normal University,Shenyang 110034;Rice Research Institute,Guangxi Academy of Agricultural Sciences,Nanning 530007;Institute of Crop Sciences,Chinese Academy of Agricultural Sciences,Beijing 100081;Sanya National Research Institute of Breeding in Hainan,Chinese Academy of Agricultural Sciences,Sanya 571700;International Rice Research Institute,Metro Manila DAPO box 7777,Philippines)

机构地区：[1]沈阳师范大学生命科学学院,沈阳110034 [2]广西壮族自治区农业科学院水稻研究所广西水稻遗传育种重点实验室,南宁530007 [3]中国农业科学院作物科学研究所,北京100081 [4]海南三亚中国农业科学院国家南繁研究院,三亚571700 [5]国际水稻研究所,菲律宾马尼拉DAPO box 7777

出　　处：《生物技术通报》2023年第8期173-184,共12页Biotechnology Bulletin

基　　金：海南省自然科学基金项目(2021JJLH0075);国际(地区)合作与交流项目(32261143465);海南省重点研发项目(ZDYF2022XDNY260);国家自然科学基金项目(31970237);辽宁省自然科学基金面上项目(2022-MS-309);沈阳师范大学“百人计划”拔尖人才项目(SSDBRJH2002012),沈阳师范大学重大项目孵化工程(ZD202104);省级大学生创新创业训练计划资助项目(S202310166005)。

摘　　要：株高是影响水稻产量稳定性的重要因素之一,水稻株高相关QTL的定位及候选基因的挖掘,有助于深入了解株高分子调控机制,进而为培育理想株型的水稻品种奠定基础。以油占8号及广西野生稻为亲本构建的285个CSSL群体为试验对象,结合NGS与BSA-seq等方法,利用SNP和InDel两种分子标记进行关联分析,对可能与株高相关的基因组区段进行定位。结果显示,Δ(SNP-index)分子标记在Chr.7和Chr.10中分别关联到3.205和1.311 Mb大小的候选基因组区域。Δ(InDel-index)标记关联到的基因组区域大小分别为2.848和1.292 Mb,且全部包含于Δ(SNP-index)关联到的区间内。结合GO、KEGG、Uniprot、eggNOG等数据库中的功能注释、高质量多态性位点筛选以及已有的株高相关转录组数据,最终关联到Chr.7中的5个候选基因,包括功能和机理已知的OsTCP21。RT-qPCR结果显示,OsTCP21在高株和矮株中的表达差异与已有研究结果相一致,LOC_Os07g05050和LOC_Os07g02850在高株中表达量较高,LOC_Os07g04220和LOC_Os07g02770在矮株中表达量较高。这5个候选基因在水稻株高性状的调控中起重要的作用,OsTCP21是一个关键调控基因。The stability of rice yield is significantly influenced by plant height,making it as a crucial factor.The identification of plant height-associated QTLs and mining of candidate genes are conducive to comprehending the molecular regulatory mechanisms that determines plant height,which may lay a foundation for breeding ideal rice varieties.This study employed 285 CSSL populations derived from the parental strains of Oryza sativa var.Youzhan 8 and wild rice from Guangxi as the experimental cohort.The study utilized SNP and InDel molecular markers,in conjunction with NGS and BSA-seq techniques,to conduct an association analysis aimed at identifying genomic regions that are potentially associated with plant height.As results,the molecular markersΔ(SNP-index)were discovered to have an association with candidate genomic regions of 3.205 and 1.311 Mb in Chr.7 and Chr.10,respectively.The genomic regions linked withΔ(InDel-index)markers were of sizes 2.848 and 1.292 Mb,and were entirely encompassed within the intervals associated withΔ(SNP-index).Through the integration of functional annotation in GO,KEGG,Uniprot,and eggNOG databases,as well as high-quality polymorphic site screening and existing transcriptome data pertaining to plant height,five candidate genes located in Chr.7 were ultimately linked to this trait,including the previously characterized OsTCP21 function and mechanism.The qRT-PCR findings were consistent with prior research,revealing differential expression of OsTCP21 in tall and dwarf plants.Specifically,LOC_Os07g05050 and LOC_Os07g02850 demonstrated elevated expressions in tall plants,whereas LOC_Os07g04220 and LOC_Os07g02770 had higher expressions in dwarf plants.The regulation of rice plant height is significantly influenced by five candidate genes,with OsTCP21 being identified as a pivotal regulatory gene.

关 键 词：水稻 株高 定位 BSA-seq RNA-SEQ 

分 类 号：S511[农业科学—作物学]