Animal Bioscience

Asian Australasian Association of Animal Production Societies (아세아태평양축산학회)
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Identifying long non-coding RNAs and characterizing their functional roles in swine mammary gland from colostrogenesis to lactogenesis

  • Shi, Lijun (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Zhang, Longchao (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Wang, Ligang (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Liu, Xin (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Gao, Hongmei (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Hou, Xinhua (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Zhao, Fuping (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Yan, Hua (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Cai, Wentao (Institute of Animal Science, Chinese Academy of Agricultural Sciences) ;
  • Wang, Lixian (Institute of Animal Science, Chinese Academy of Agricultural Sciences)
  • Received : 2021.07.06
  • Accepted : 2021.09.11
  • Published : 2022.06.01
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Abstract

Objective: This study was conducted to identify the functional long non-coding RNAs (lncRNAs) for swine lactation by RNA-seq data of mammary gland. Methods: According to the RNA-seq data of swine mammary gland, we screened lncRNAs, performed differential expression analysis, and confirmed the functional lncRNAs for swine lactation by validation of genome wide association study (GWAS) signals, functional annotation and weighted gene co-expression network analysis (WGCNA). Results: We totally identified 286 differentially expressed (DE) lncRNAs in mammary gland at different stages from 14 days prior to (-) parturition to day 1 after (+) parturition, and the expressions of most of lncRNAs were strongly changed from day -2 to day +1. Further, the GWAS signals of sow milk ability trait were significantly enriched in DE lncRNAs. Functional annotation revealed that these DE lncRNAs were mainly involved in mammary gland and lactation developing, milk composition metabolism and colostrum function. By performing weighted WGCNA, we identified 7 out of 12 lncRNA-mRNA modules that were highly associated with the mammary gland at day -14, day -2, and day +1, in which, 35 lncRNAs and 319 mRNAs were involved. Conclusion: This study suggested that 18 lncRNAs and their 20 target genes were promising candidates for swine parturition and colostrum occurrence processes. Our research provided new insights into lncRNA profiles and their regulating mechanisms from colostrogenesis to lactogenesis in swine.

Keywords

Acknowledgement

We acknowledge financial support by the Chinese Academy of Agricultural Sciences.

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