Transcriptomic Difference Analysis In The Skin Of Fine-Wool Sheep During Secondary Follicle Initiation

Secondary hair follicle determines the production of fine-wool and playsan important rolein influencing fiber diameter, therefore, illustrating themolecular mechanism of regulationand seeking the distinctive regulating factors and functional genes on morphogenesis and growth development of secondary hair follicle among sheep will provide a scientific foundation for improving wool quality of sheep by using molecular breeding method.There are a great number of studies have verified thatthe importance of Lnc RNA in physiological and pathological process such as organogenesis, cell differentiation and outbreak of diseases, however, there is little evidence for the regulatory mechanism of Lnc RNA on secondary hair follicle morphogenesis.Thetranscriptome property of skin at different stages which concluded the early stage(87d) and the substrate stage of morphogenesis(96d) in the process of secondary hair folliclemorphogenesiswas compared in this study by using transcriptome sequencing on light of highthroughput sequencing. The clean reads and sheep genome v3.1 was aligned.The results were showed as follow:First, the main type of RNA in the process ofmorphogenesis on secondary hair follicle was m RNA. In the clean reads, m RNA at different stages(87d and 96d) were 61.92% and 62.51%, the unknown and potential reads of Lnc RNA were 36.41% and 35.08%, respectively. There were 1288 candidate Lnc RNA transcripts were screened using Cufflinks, and candidate Lnc RNAtranscriptswhich have the potential of encoding were rejected by application of CNCI, Pfam protein structure domains and phylo CSF analyses.Consequently, there were 884 Lnc RNAobtained in this study, which concluded 622 Linc RNA, 118 intronic Lnc RNA and 74 anti-sense Lnc RNA.Second,the differential genes and gene expression of Lnc RNA were analyzed by using Edge R.A total of 192 significantly differential genes were detected, including 67 up-regulated genes and 125 down-regulated genes; there were 15 significantly differential Lnc RNA were also detected, 6were up-regulated and 9 were down-regulated. Ten differential expression genes and Lnc RNA were selected to validate the resultsby real time quantitative polymerase chain reaction(RT-q PCR) which was consistent with sequencing data.Third,the function of enrichment class and regulatory pathway analyses of differential expression genes and Lnc RNA were studied using GO, KEGG and so on. The differential expression genes and Lnc RNAwere enriched1023 and 191 at GO term, 136 and 12 at pathway, respectively. There were 157 and 32 GOterm were significantly enriched, mainly the formate dehydrogenase complex, regulation of transcription, DNA-dependent, cation binding and so on; PPAR was the significantly enriched signal pathway(padj< 0.05).In conclusion, themorphogenesis of hair follicle not only regulated by m RNA, but also Lnc RNAinvolved in the process. The discovery of differential expressiongenes and Lnc RNA could provide a scientific and theoretical foundation for further clarification on the molecular regulation mechanism of hair follicle morphogenesis.