陆地棉TRM基因家族的鉴定及纤维品质相关优异单倍型分析

Identification of TRM gene family and fiber quality related excellent haplotype analysis in Gossypium hirsutum L.

【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ClusterⅠ~Ⅲ3个亚族。

【Objective】Identification of TRM gene family and fiber quality related excellent haplotype analysis 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 quality traits(fiber length,strength,and Macron value)were screened by gene haplotype analysis.【Results】The analysis 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 development.Transcriptome data showed that 60 TRM family genes were expressed preferentially during fiber development,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 excellent haplotype TRM genes related to fiber length,strength and Macron value were screened,respectively.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 decreasing the Macron value.【Conclusion】In this study,75 TRM family members were identified on 24 chromosomes in upland cotton(Gossypium hirsutum L.),which were systematically divided into cluster evolutionⅠ-Ⅲ3 subtribe.