Identification and characterization of long non-coding RNAs in subcutaneous adipose tissue from castrated and intact full-sib pair Huainan male pigs

Jing Wang; Liushuai Hua; Junfeng Chen; Jiaqing Zhang; Xianxiao Bai; Binwen Gao; Congjun Li; Zhihai Shi; Weidong Sheng; Yuan Gao; Baosong Xing

doi:10.1186/s12864-017-3907-z

Identification and characterization of long non-coding RNAs in subcutaneous adipose tissue from castrated and intact full-sib pair Huainan male pigs

BMC Genomics. 2017 Jul 19;18(1):542. doi: 10.1186/s12864-017-3907-z.

Authors

Affiliations

¹ Henan Key Laboratory of Farm Animal Breeding and Nutritional Regulation, Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, No.116 Huayuan road, Zhengzhou, 450002, People's Republic of China.
² United States Department of Agriculture-Agricultural Research Service, Bovine Functional Genomics Laboratory, Beltsville, MD, 20705, USA.
³ Xinxian Bureau of Animal Husbandry, Xinxian, 465550, Beijing, People's Republic of China.
⁴ Henan Key Laboratory of Farm Animal Breeding and Nutritional Regulation, Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, No.116 Huayuan road, Zhengzhou, 450002, People's Republic of China. baosong008@126.com.

Abstract

Background: Long non-coding RNAs (lncRNAs) regulate adipose tissue metabolism, however, their function on testosterone deficiency related obesity in humans is less understood. For this research, intact and castrated male pigs are the best model animal because of their similar proportional organ sizes, cardiovascular systems and metabolic features.

Results: We identified lncRNAs in subcutaneous adipose tissue by deep RNA-sequencing using the intact and castrated Huainan male pigs. The results showed that castration reduced serum testosterone but increased body fatness-related traits (serum triglyceride levels, backfat thickness, intramuscular fat content, and adipocyte size). Meanwhile, 343 lncRNAs from subcutaneous adipose tissue were identified, including 223 intergenic lncRNAs (lincRNAs), 68 anti-sense lncRNAs, and 52 intronic lncRNAs. It was predicted that there were 416 recognition sites for C/EBPα in the 303 lncRNA promoter region, and 13 adipogenesis-promoting miRNAs and five adipogenesis-depressing miRNAs target these lncRNAs. Eighteen lncRNAs, including nine up- and nine down-regulated had more than 2-fold differential expression between the castrated and intact male pigs (q-value < 0.05). Functional analysis indicated that these 18 lncRNAs and their target genes were involved in fatty acid, insulin, and the adipocytokine signaling pathway. We further analyzed the features of a conserved mouse lncRNA gene ENSMUST00000189966 and found it mainly expressed in the cell nucleus and target the Nuclear Receptor Subfamily 2 Group F Member 2 (NR2F2) gene. In 3 T3-L1 cells, differentiation down-regulated their expression, but dihydrotestosterone (DHT) significantly up-regulated their expression in a concentration-dependent manner (P < 0.05).

Conclusions: These results suggested that lncRNAs and their target genes might participated in the castration-induced fat deposition and provide a new therapeutic target for combatting testosterone deficiency-related obesity.

Keywords: Fat deposition; LncRNA; Pig; Subcutaneous adipose tissue.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
High-Throughput Nucleotide Sequencing*
Male
Orchiectomy*
RNA, Long Noncoding / genetics*
RNA, Messenger / genetics
Sequence Analysis, RNA*
Subcutaneous Fat / metabolism*
Swine

Substances

RNA, Long Noncoding
RNA, Messenger