摘要
[目的]鉴定陆地棉TRM基因家族序列及理化性质,分析与棉纤维品质相关的优异单倍型基因差异.[方法]利用生物信息学分析陆地棉TRM基因家族进化关系、理化性质和聚类表达;利用基因单倍型效应分析筛选调控纤维品质性状(纤维长度、比强度、马克隆值)的候选基因.[结果]陆地棉TRM基因家族编码的氨基酸为376～1093,等电点为4.64～9.56.亚细胞定位预测发现多达60 个陆地棉TRM基因家族定位于细胞核中.TRM基因家族含有较多的光响应、激素响应、胁迫响应和生长发育相关的元件.60 个TRM基因家族在纤维发育时期优势表达,调控棉花纤维发育.每个基因的单倍型个数为 1～8,并筛选到纤维长度、强度以及马克隆值相关的优异单倍型TRM基因分别有 14、18 和 15 个,其中有 11 个基因同时具有长度、强度、马克隆值3 种改良纤维品质的优异单倍型.GH_D09G0775 的Hap_4 单倍型和GH_D03G1434 的Hap_3 单倍型在增加纤维长度、强度的同时降低了马克隆值.[结论]在陆地棉(Gossypium hirsutum L.)中鉴定出75 个TRM基因家族成员分布在24 条染色体上,系统进化将其分为Cluster Ⅰ～Ⅲ3 个亚族.
Abstract
[Objective]Identification of TRM gene family and fiber quality related excellent haplotype a-nalysis in Gossypium hirsutum L.[Methods]Bioinformatics was used to analyze the evolutionary relationship,physicochemical properties and cluster expression of TRM gene families.Candidate genes regulating fiber quali-ty traits(fiber length,strength,and Macron value)were screened by gene haplotype analysis.[Results]The a-nalysis of physicochemical properties showed that the amino acids encoded by this family gene ranged from 376-1,093,with isoelectric points ranging from 4.64-9.56.Subcellular localization predicted that up to 60 TRM family genes were localized in the nucleus.The results of cis-acting element analysis showed that TRM gene family contained more elements related to light response,hormone response,stress response and growth and de-velopment.Transcriptome data showed that 60 TRM family genes were expressed preferentially during fiber de-velopment,which might regulate cotton fiber development.Furthermore,1,245 upland cotton materials were used to genotype TRM,and the number of haplotypes of each gene was found to be 1-8,and 14,18 and 15 ex-cellent haplotype TRM genes related to fiber length,strength and Macron value were screened,respective-ly.Among them,11 genes had excellent haplotypes of length,strength and micronotype.The Hap_4 haplotype of GH_D09G0775 and the Hap_3 haplotype of GH_D03G1434 increased fiber length and strength while decrea-sing the Macron value.[Conclusion]In this study,75 TRM family members were identified on 24 chromo-somes in upland cotton(Gossypium hirsutum L.),which were systematically divided into cluster evolutionⅠ-Ⅲ3 subtribe.
基金项目
河南省农业良种联合攻关项目(2022010301)
新疆维吾尔自治区自然科学基金(2021D01B113)
中央级公益性科研院所基本科研业务费专项(1610162022013)
国家科技期刊平台
NSTL
万方数据