A genome-wide landscape of mRNAs, lncRNAs, and circRNAs during subcutaneous adipogenesis in pigs

Abstract

BackgroundPreadipocyte differentiation plays a critical role in subcutaneous fat deposition in pigs. However, the roles of different RNAs, such as messenger RNAs (mRNAs), long non-coding RNAs (lncRNAs), and circular RNAs (circRNAs) in the differentiation process of subcutaneous preadipocytes, are still largely unclear. In the present study, a transcriptome analysis, including the analysis of mRNAs, lncRNAs, and circRNAs, during different differentiation stages, namely, day 0 (D0), day 2 (D2), day 4 (D4), and day 8 (D8), of subcutaneous preadipocytes from Chinese Erhualian pigs was performed.ResultsA total of 1554, 470, 1344, 1777, and 676 differentially expressed (DE) mRNAs, 112, 58, 95, 136, and 93 DE lncRNAs, and 902, 787, 710, 932, and 850 DE circRNAs were identified between D2 and D0, between D4 and D2, between D8 and D4, between D4 and D0, and between D8 and D0, respectively. Furthermore, functional enrichment analysis showed that the common DE mRNAs during the entire differentiation process were mainly involved in lipid metabolic and cell differentiation processes. Additionally, co-expression network analysis identified the potential lncRNAs related to adipogenesis, e.g., MSTRG.131380 and MSTRG.62128.ConclusionsOur study provides new insights of the expression changes of RNAs during adipogenic differentiation, which might contribute to the phenotype of subcutaneous adipogenesis. These results greatly improve our understanding of the molecular mechanisms regulating subcutaneous fat deposition in pigs.Electronic supplementary materialThe online version of this article (10.1186/s40104-018-0292-7) contains supplementary material, which is available to authorized users.

Comparative analysis of gene expression profiles in differentiated subcutaneous adipocytes between Jiaxing Black and Large White Pigs

“…Subcutaneous (SC) fat tissue has multiple functions in pigs, including thermal insulation, energy storage and adipokine secretion [25,26]. However, the reduction of SC fat content is of great importance for pig production because fat deposition wastes a lot of energy [7]. Therefore, excessive triglyceride accumulation in SC fat tissues is unfavorable for both energy utilization and lean meat production of pigs.…”

“…deposit low level of SC fat, while Chinese indigenous pig breeds, such as Laiwu, Taihu, and Jinhua, deposit high levels of SC fat [2][3][4][5][6]. Excessive SC fat deposition greatly decreases the growth performance and meat production efficiency, which results in profit reduction [7,8]. However, Chinese indigenous pig breeds often exhibit better fertility, disease resistance and IM fat content than foreign pig breeds [9][10][11].…”

GROWTH AND DEVELOPMENT SYMPOSIUM: STEM AND PROGENITOR CELLS IN ANIMAL GROWTH: Long noncoding RNAs in adipogenesis and adipose development of meat animals12

“…Lnc_000414, which was significantly upregulated in Bamei pigs and closely related to fat synthesis, negatively regulated proliferation of porcine intramuscular adipocytes (Sun et al, 2018). Additionally, Liu et al (2018c) reported the expression changes of mRNAs, lncRNAs, and circRNAs during the subcutaneous preadipocyte differentiation process. Coexpression network analysis identified potential lncRNAs (including MSTRG.131380 and MSTRG.62128) related to adipogenesis, which might contribute to the phenotypic changes in adipocytes at different stages of differentiation (Liu et al, 2018c).…”

“…Additionally, Liu et al (2018c) reported the expression changes of mRNAs, lncRNAs, and circRNAs during the subcutaneous preadipocyte differentiation process. Coexpression network analysis identified potential lncRNAs (including MSTRG.131380 and MSTRG.62128) related to adipogenesis, which might contribute to the phenotypic changes in adipocytes at different stages of differentiation (Liu et al, 2018c). More recently, an antisense lncRNA PLA2G16-AS, transcribed from the phospholipase A2 group XVI locus (PLA2G16) in the porcine genome, was shown to be dominantly expressed in porcine adipose tissue (Liu et al, 2018b).…”

Competitive endogenous RNA network reveals that miR-1343 play key regulatory roles in longissimus dorsi muscle between Saba and Yorkshire pigs

“…In addition, lncRNA lnc_000414 was identified to closely associate with fat synthesis in Chinese Bamei pigs [18], and lncRNA MEG3 was identified to participate in the regulation of skeletal muscle development [19]. In circRNA, some circRNAs including 902, 937, 787 and 850 were identified to differentially express among differentiation stages of subcutaneous preadipocytes in Chinese Erhualian pigs [20]. The findings demonstrated that ncRNAs play roles in many aspects of pork quality formation.…”