Divergently expressed RNA identification and interaction prediction of long non-coding RNA and mRNA involved in Hu sheep hair follicle

Xiaoyang Lv,Shuixing Sheng,Chengyan Jin,Wei Sun,Shuangxia Zou,Lihong Wang,Ling Chen,Weihao Chen,Yue Wang,Wen Gao

doi:10.1038/s41598-019-43854-8

Xiaoyang Lv, Shuixing Sheng + Show 8 more

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https://doi.org/10.1038/s41598-019-43854-8

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Abstract

Hair follicles are the basis of the formation of Hu sheep pattern. This study was to employ whole transcriptome sequencing to screen differentially expressed long non-coding RNAs (lncRNAs) between three wave patterns in lambskin. In this study, three groups of 2-day-old Hu sheep were selected from full-sib individuals that included small, medium, and large waves, and hair follicle tissues were collected from dorsal side of Hu sheep. LncRNA and mRNA expression profiles were analyzed by whole transcriptome sequencing technology. 33, 31, and 41 differentially expressed lncRNAs were selected between large and medium, medium and small, and large and small, respectively. 458, 481, and 498 differentially expressed mRNAs were found between large and medium, medium and small, and large and small, respectively, by RNA-seq analysis. qRT-PCR results of 16 randomly selected lncRNAs and mRNAs were similar to the sequencing results. Correlation analysis of lncRNA and mRNA expression showed that, several lncRNAs may be enriched for hair follicle such as Wnt, mTOR, Notch signaling pathways. Our results aid in excavation of mRNAs and lncRNAs in hair follicle, and providing a basis for future study on pattern formation mechanisms.

Highlights

Hu sheep is famous for its white lambskin in the word, and the lambskin from 2-day-old Hu lambs is called soft gem in China
Yue et al.[12] identified 15 significant differentially long non-coding RNAs (lncRNAs), and he found that XLOC005698 might be involved in hair follicle development, which could be compete for oar-miR-3955-5p
Zhu et al.[14] successfully constructed the regulatory network of lncRNA-H19 in secondary hair follicle of Liaoning cashmere goat. They found that lncRNA-H19 has the highest level of expression at the anagen phase, which speculates that lncRNA-H19 is closely related to hair follicle growth and development of Liaoning cashmere goat

Summary

Introduction

Hu sheep is famous for its white lambskin in the word, and the lambskin from 2-day-old Hu lambs is called soft gem in China. Si et al.[13] found that LncRNA PlncRNA-1could regulate proliferation and differentiation of hair follicle stem cells through TGF-β1-mediated Wnt/β-catenin signal pathway. There are currently very few reports on lncRNA in hair follicle growth and development, and no relevant lncRNA studies on wave pattern of lambskin. Whole transcriptome sequencing was used To study the molecular mechanism of waves pattern formation in Hu sheep and screen the differentially expressed lncRNAs between three wave patterns, which participated in the hair follicle cell biological process of growth and apoptosis, proliferation and differentiation. This study can provide basis for the mechanism of hair follicle growth and development between different wave pattern

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