酉州乌羊色素沉积差异的皮肤全长转录组学研究OA

The study aimed to investigate the molecular mechanisms underlying regional differences in skin pigmentation and to elucidate the biological characteristics of pigmentation in the Youzhou dark goat.In this study,3 male Youzhou dark goats at the developmental stage with similar ages and body weights were selected as experimental subjects.Total RNA was extracted from the back skin(pigmented skin)and axillary skin(non-pigmented skin)of each goat.Equal amounts of RNA from the 3 individuals were pooled to construct a"pigmented skin pool"and a"non-pigmented skin pool",respectively.Using the single molecule real-time(SMRT)sequencing technology of PacBio Sequel Ⅱsequencing platform,combined with DNBSEQ RNA-seq technology,a full-length transcriptome analysis was performed on the two skin color groups.Furthermore,6 differentially expressed genes(DEGs)involved in the melanin deposition signaling pathway were validated using quantitative real-time PCR.The results showed that 57 732 089 transcripts were obtained from the pigmented skin part and 29 701 627 transcripts from the non-pigmented skin,and 84 974 transcripts were aligned to the reference genome.Compared with the known transcripts of the genome,21 545 new transcripts were obtained.After comparison,17 582,13 702,17 614,7 795,12 341,1 156 and 7 651 transcripts were annotated to NR,Pfam,UniProt,KEGG,GO,KOG and PATHWAY databases,respectively.In addition,71 917 AS,5 202 APA loci,18 fusion transcripts,17 429 SSR markers and 115 lncRNAs were identified or predicted.A total of 609 DEG transcripts were identified in different skin colors.Among them,372 transcripts were up-regulated and 237 transcripts were down-regulated.Nine genes were enriched in the melanin synthesis pathway,6 of these DEGs were further confirmed by real-time quantitative RT-qPCR in independent experiments.Here,the full-length transcriptome sequencing data of skin of different skin colors in Youzhou dark goat were obtained,and the related pathways of pigmentation in Youzhou dark goat were revealed.The gene annotation of the reference genome was improved,and the enrichment of genes with different skin colors was screened,which provided a new data background for further analyzing the phenotype of Youzhou dark goat at the transcriptome level.