Institute of Animal Husbandry and Veterinary Science, Shanghai Academy of Agricultural Sciences, Shanghai, 201106, China.
Shanghai Municipal Key Laboratory of Agri-Genetics and Breeding, Shanghai, 201106, China.
BMC Genomics. 2024 May 4;25(1):443. doi: 10.1186/s12864-024-10304-3.
The transcriptome and metabolome dissection of the skeletal muscle of high- and low- growing individuals from a crossbred population of the indigenous Chongming white goat and the Boer goat were performed to discover the potential functional differentially expressed genes (DEGs) and differential expression metabolites (DEMs).
A total of 2812 DEGs were detected in 6 groups at three time stages (3,6,12 Month) in skeletal muscle using the RNA-seq method. A DEGs set containing seven muscle function related genes (TNNT1, TNNC1, TNNI1, MYBPC2, MYL2, MHY7, and CSRP3) was discovered, and their expression tended to increase as goat muscle development progressed. Seven DEGs (TNNT1, FABP3, TPM3, DES, PPP1R27, RCAN1, LMOD2) in the skeletal muscle of goats in the fast-growing and slow-growing groups was verified their expression difference by reverse transcription-quantitative polymerase chain reaction. Further, through the Liquid chromatography-mass spectrometry (LC-MS) approach, a total of 183 DEMs in various groups of the muscle samples and these DEMs such as Queuine and Keto-PGF1α, which demonstrated different abundance between the goat fast-growing group and slow-growing group. Through weighted correlation network analysis (WGCNA), the study correlated the DEGs with the DEMs and identified 4 DEGs modules associated with 18 metabolites.
This study benefits to dissection candidate genes and regulatory networks related to goat meat production performance, and the joint analysis of transcriptomic and metabolomic data provided insights into the study of goat muscle development.
本研究对来自杂交品种崇明白山羊和波尔山羊的个体的骨骼肌进行转录组和代谢组学分析，以发现潜在的功能差异表达基因（DEGs）和差异表达代谢物（DEMs）。
采用 RNA-seq 方法，在骨骼肌的 6 个组（3、6、12 月龄）的三个时间点共检测到 2812 个 DEGs。发现了一个包含七个与肌肉功能相关的基因（TNNT1、TNNC1、TNNI1、MYBPC2、MYL2、MHY7 和 CSRP3）的 DEGs 集，随着山羊肌肉发育的进行，其表达趋于增加。通过反转录-定量聚合酶链反应验证了快速生长和慢速生长组山羊骨骼肌中七个 DEGs（TNNT1、FABP3、TPM3、DES、PPP1R27、RCAN1 和 LMOD2）的表达差异。此外，通过液相色谱-质谱（LC-MS）方法，共鉴定出肌肉样本中不同组别的 183 个 DEMs，这些 DEMs 如 Queuine 和 Keto-PGF1α 在快速生长组和慢速生长组之间的丰度存在差异。通过加权相关网络分析（WGCNA），研究将 DEGs 与 DEMs 相关联，并确定了与 18 种代谢物相关的 4 个 DEGs 模块。
本研究有助于解析与山羊肉质生产性能相关的候选基因和调控网络，转录组和代谢组学数据的联合分析为研究山羊肌肉发育提供了新的思路。
