Liu Huijing, Xi Yu, Liu Guorong, Zhao Yuqiang, Li Ji, Lei Minggang
Key Laboratory of Swine Genetics and Breeding of Agricultural Ministry, and Key Laboratory of Agricultural Animal Genetics, Breeding and Reproduction of Ministry of Education, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan, People's Republic of China.
Funct Integr Genomics. 2018 Mar;18(2):195-209. doi: 10.1007/s10142-017-0584-6. Epub 2018 Jan 10.
Myogenesis is accompanied by a number of changes in gene expression in mammals, and the transcriptional events that underlie these processes have not been yet fully elucidated. In this study, RNA-seq was used to comprehensively compare the transcription profiles of skeletal muscle between Tongcheng (TC) and Yorkshire (YK) pigs at 40, 55, 63, 70, and 90 days of gestation. One thousand three hundred seventeen and 691 differentially expressed genes (DEGs) were detected in TC and YK, respectively, among which 321 DEGs were shown to be common in TC and YK. STEM (Time-series Expression Miner) analysis revealed different gene expression profiles between the two breeds. One thousand six hundred seventy-seven genes showed significant differential expression between TC and YK at the identical stages, while three genes were found to be common in all comparisons. A total of 3185 new putative transcripts were also predicted. Several gene expression profiles were further validated by qRT-PCR. Fifty-five dpc (days post coitum) was suggested to be the key stage to contribute developmental differences between TC and YK. PTEN, EP300, ENSSSCG00000004979 (Myosin 9A), CDK14, IRS1, PPP1CC, and some ribosomal proteins were suggested to be the key candidate genes for elucidating the developmental differences between the two breeds. In conclusion, we constructed comprehensive high-resolution gene expression maps of these two pig breeds, which not only provides an in-depth understanding of the dynamics of transcriptional regulation during myogenesis in this study, but also would facilitate the elucidation of molecular mechanisms underlying myogenesis in the future studies.
在哺乳动物中，肌生成伴随着基因表达的一系列变化，而这些过程背后的转录事件尚未完全阐明。在本研究中，利用RNA测序全面比较了妊娠40、55、63、70和90天的通城猪（TC）和大白猪（YK）骨骼肌的转录谱。在TC和YK中分别检测到1317个和691个差异表达基因（DEG），其中321个DEG在TC和YK中是共有的。STEM（时间序列表达挖掘器）分析揭示了两个品种之间不同的基因表达谱。1677个基因在相同阶段的TC和YK之间表现出显著差异表达，而在所有比较中发现有3个基因是共有的。还预测了总共3185个新的假定转录本。通过qRT-PCR进一步验证了几种基因表达谱。妊娠55天被认为是导致TC和YK发育差异的关键阶段。PTEN、EP300、ENSSSCG00000004979（肌球蛋白9A）、CDK14、IRS1、PPP1CC和一些核糖体蛋白被认为是阐明两个品种发育差异的关键候选基因。总之，我们构建了这两个猪品种的全面高分辨率基因表达图谱，这不仅为本研究中肌生成过程中转录调控的动态提供了深入理解，也将有助于在未来研究中阐明肌生成的分子机制。
