CPP基因家族在糜子泛基因组中的结构变异  

Structural variation of the CPP gene family in broomcorn millet(Panicum miliaceum L.)pan-genomes

作　　者：李蕊敏 刘天鹏[2] 何继红[2] 董孔军[2] 张磊[2] 李亚伟 杨天育[1,2] LI Ruimin;LIU Tianpeng;HE Jihong;DONG Kongjun;ZHANG Lei;LI Yawei;YANG Tianyu(College of Life Science and Technology,Gansu Agricultural University,Lanzhou 730070,China;Crop Research Institute,Gansu Academy of Agricultural Sciences,Lanzhou 730070,China)

机构地区：[1]甘肃农业大学生命科学技术学院,兰州730070 [2]甘肃省农业科学院作物研究所,兰州730070

出　　处：《应用与环境生物学报》2024年第6期1245-1254,共10页Chinese Journal of Applied and Environmental Biology

基　　金：第二次青藏高原综合科学考察研究项目(2019QZKK0303);甘肃省拔尖领军人才项目(2023);国家现代农业产业技术体系项目(CARS-06-14.5-A8)资助。

摘　　要：利用已公布的糜子泛基因组数据,采用生物信息学方法,对CPP家族基因进行鉴定,分析其结构变异、理化性质、染色体分布、系统进化及结构变异与穗长形成的关系.在33份代表性糜子种质泛基因组(含1份参考基因组)中鉴定出16-17个CPP家族基因成员,氨基酸数量为316-1149,等电点介于5.59-9.57内,不均匀地分布在14条染色体上.系统进化分析将CPP家族分为A、B两大类,Ⅰ、Ⅱ、Ⅲ和Ⅳ共4个亚类.PmCPP家族基因均包含在不同同源组内.motif4是糜子PmCPP家族基因的保守基序,而6个基序motif2、motif3、motif6、motif8、motif9和motif15在8个基因PmCPP1、PmCPP5、PmCPP8、PmCPP10、PmCPP11、PmCPP12、PmCPP16和PmCPP17中差别较大.糜子CPP家族基因趋向纯化选择,进化压力Ka<Ks,Ka/Ks<1.32份糜子种质中CPP家族成员结构变异与穗长表型的差异分析及在穗主轴伸长期的表达水平显示,PmCPP8和PmCPP12基因的不同结构类型与糜子穗长存在显著关系,且PmCPP8、PmCPP11和PmCPP12在糜子种质BC382(15)和BC494(24)中表达量存在较大差异.本研究表明CPP家族成员结构变异与糜子穗长形成密切相关.In this study,we employed bioinformatic methods to identify CPP genes within broomcorn millet pan-genomes,and analyzed the structural variations,physicochemical properties,chromosomal distribution,phylogenetic relationships of millet,and the association between structural variations and panicle length formation,Among the 33 assessed representative broomcorn millet pan-genomes,we identified 16 to 17 CPP gene family members,which encoded proteins ranging from 316 to 1149 amino acids in length,with isoelectric points between 5.59 and 9.57,which were unevenly distributed among the 14 chromosomes.Phylogenetic analysis classified the CPP gene family members into two major groups(A and B)and four subgroups(Ⅰ,Ⅱ,Ⅰ,andⅣ),with each of the PmCPP genes clustering in different homologous groups.Motif analysis revealed that motif 4 was a conserved sequence among PmCPP genes,whereas motifs 2,3,6,8,9,and 15 were found to vary significantly among the eight genes PmCPP1,PmCPP5,PmCPP8,PmCPP10,PmCPP11,PmCPP12,PmCPP16,and PmCPP17.Evolutionary pressure analysis revealed relationships of Ka<Ks and Ka/Ks<1,thereby indicating that the CPP genes in broomcorn millet are under purifying selection.Combined with the difference analysis of structural variations among CPP family members,along with the panicle length phenotypes in 32 broomcorn millet germplasms and expression levels during the elongation period of the main panicle axis,we established that different structural types of PmCPP8 and PmCPP12 genes are significantly associated with the panicle length of broomcorn millet.Moreover,we detected considerable differences in the expression of PmCPP8,PmCPP11 and PmCPP12 in broomcorn millet germplasms BC382(15)and BC494(24).The findings of this study indicate that structural variations in CPP family members are closely associated with panicle length development in broomcorn millet.

关 键 词：糜子 CPP基因家族 泛基因组 基因结构 Ka/Ks 穗长 

分 类 号：S51[农业科学—作物学]