■骨骼肌生长是肉类生产的重要经济性状,藏猪之间存在显著差异(TIBPs,生长缓慢的品种)和大型白猪(LWP,快速增长的品种)。然而,这种差异的遗传基础仍不清楚.
■在当前的研究中,我们整合了来自60日龄胚胎肌肉组织的差异表达基因(DEG)和蛋白质(DEP),随着全基因组单核苷酸多态性(SNP)显示绝对等位基因频率差异(ΔAF)在TIBP和LWP品种之间0.5或更多,解开影响骨骼肌生长的遗传因素。
■我们的分析揭示了3499DEG和628DEP,其中SNP的ΔAF等于或大于0.5。进一步的功能分析确定了145个DEGs和23个DEP参与与骨骼肌发育相关的生物过程,22个DEGs和3个DEP参与mTOR信号通路,以积极调节蛋白质合成而闻名。在这些基因中,几个DEG和DEP,在调控区或/和编码区富含TIPB特异性SNP,在TIBP和LWP品种之间显示出明显的ΔAF,包括MYF5,MYOF,ASB2,PDE9A,SDC1,PDGFRA,MYOM2,ACVR1,ZIC3,COL11A1,TGFBR1,EDNRA,TGFB2,PDE4D,PGAM2,GRK2,SCN4B,CACNA1S,MYL4、IGF1和FOXO1。此外,CAPN3,MYOM2和PGAM2等基因被鉴定为与骨骼肌发育相关的DEP和DEG,在调控区和/或编码区包含多个TIBP特异性和LWP优势SNP,强调了两个品种之间显著的ΔAF差异。
■s:这项对DEG和DEP中SNP的全面调查发现了大量与产前阶段骨骼肌发育相关的SNP和基因。这些发现不仅揭示了TIBP和LWP品种之间肌肉差异的潜在因果基因,而且为旨在提高肉类产量的猪育种策略提供了有价值的见解。
UNASSIGNED: Skeletal muscle growth is an important economic trait for meat production, with notable differences between Tibetan pigs (TIBPs, a slow-growing breed) and Large White pigs (LWPs, a fast-growing breed). However, the genetic underpinnings of this disparity remain unclear.
UNASSIGNED: In the current study, we integrated differentially expressed genes (DEGs) and proteins (DEPs) from 60-day-old embryonic muscle tissue, along with whole-genome single nucleotide polymorphisms (SNPs) displaying absolute allele frequency differences (ΔAF) of 0.5 or more between the TIBP and LWP breeds, to unravel the genetic factors influencing skeletal muscle growth.
UNASSIGNED: Our analysis revealed 3499 DEGs and 628 DEPs with SNPs having a ΔAF equal to or greater than 0.5. Further functional analysis identified 145 DEGs and 23 DEPs involved in biological processes related to skeletal muscle development, and 22 DEGs and 3 DEPs implicated in the mTOR signaling pathway, which is known for positively regulating protein synthesis. Among these genes, several DEGs and DEPs, enriched with TIPB-specific SNPs in regulatory or/and coding regions, showed marked ΔAF between the TIBP and LWP breeds, including MYF5, MYOF, ASB2, PDE9A, SDC1, PDGFRA, MYOM2, ACVR1, ZIC3, COL11A1, TGFBR1, EDNRA, TGFB2, PDE4D, PGAM2, GRK2, SCN4B, CACNA1S, MYL4, IGF1, and FOXO1. Additionally, genes such as CAPN3, MYOM2, and PGAM2, identified as both DEPs and DEGs related to skeletal muscle development, contained multiple TIBP-specific and LWP-predominant SNPs in regulatory and/or coding regions, underscoring significant ΔAF differences between the two breeds.
UNASSIGNED: s: This comprehensive investigation of SNPs in DEGs and DEPs identified a significant number of SNPs and genes related to skeletal muscle development during the prenatal stage. These findings not only shed light on potential causal genes for muscle divergence between the TIBP and LWP breeds but also offer valuable insights for pig breeding strategies aimed at enhancing meat production.