南方农业学报2025，Vol.56Issue(7)：2037-2045,9.DOI:10.3969/j.issn.2095-1191.2025.07.001
基于转录组测序揭示羊毛柔软度差异的遗传基础
Elucidation of wool softness difference based on transcription sequencing
摘要
Abstract
[Objective]This study aimed to elucidate the genetic basis of wool softness difference via transcriptome se-quencing and to provide candidate loci and theoretical references for breeding superior wool traits.[Method]Fine-wool sheep(XMY),sheep(MY),and goats(SY)with significant wool softness differences were selected to observe their wool phenotypes.Hair follicle tissues were isolated using stereomicroscope to extract total RNA for transcriptome se-quencing.Differential alternative splicing events of samples were analyzed using ARMATS;Fragments per kilobase of exon model per million fragements mapped(FPKM)values of genes were calculated using StringTie;differentially ex-pressed genes(DEGs)were screened using DESeq2 and GO functional enrichment analysis was conducted.Relative ex-pression of DEGs was validated by real-time fluorogenic quantitative PCR.[Result]MY exhibited the coarsest wool tex-ture with lowest softness;SY showed the finest fibers with highest softness;while XMY showed superior elasticity,inter-mediate softness,and compact fiber structure.SY and XMY had the lowest heatmap values of gene expression correlation coefficient,indicating a maximal difference between them.MY vs XMY exhibited the highest number of differential spli-cing events,while SY vs XMY exhibited the lowest number.DEGs in the groups MY vs SY,MY vs XMY,and SY vs XMY DEGs were significantly enriched in keratin synthesis pathways such as keratin filament and ribosome.In MY vs XMY and SY vs XMY,the keratin filament pathway was most enriched,whereas in MY vs SY,the ribosome pathway was most enriched.The FPKM value of the KRT74 gene in SY was significantly higher than that in MY(P<0.05),while the EDAR gene showed no significant difference in FPKM value between SY and MY(P>0.05).The groups of MY vs SY,MY vs XMY,and SY vs XMY had 65 DEGs,which annotated into 5 keratin synthesis-related genes in the NR data-base.Candidate genes LOC105604740,LOC101108536,LOC114110489,and LOC101108798 showed highly significant differential expression(P<0.01)between MY and SY.[Conclusion]The formation of wool softness is the result of the combined effects of keratin family genes(KRT2,KRT74)and their associated regulatory networks at both the expression and the spatiotemporal pattern.Based on transcriptome sequencing of hair follicle tissues,65 DEGs potentially affecting wool softness are identified,among which LOC105604740,LOC101108536,LOC114110489,and LOC101108798 genes may serve as candidate DNA molecular markers for wool quality.关键词
羊毛/柔软度/转录组测序/角蛋白/差异可变剪接事件Key words
wool/softness/transcriptome sequencing/keratin/differential alternative splicing events分类
农业科技引用本文复制引用
赛迪古丽·赛买提,王乐,柴婷,许艳丽,胡昕,吕雪峰..基于转录组测序揭示羊毛柔软度差异的遗传基础[J].南方农业学报,2025,56(7):2037-2045,9.基金项目
国家现代农业产业技术体系项目(CARS-39-20) （CARS-39-20）
新疆自然科学基金项目(2022D01B16) China Agriculture Research System(CARS-39-20) （2022D01B16）
Natural Science Foundation of Xinjiang(2022D01B16) （2022D01B16）
