Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
State Key Laboratory of Animal Nutrition, Beijing 100193, China.
Int J Mol Sci. 2020 Mar 5;21(5):1800. doi: 10.3390/ijms21051800.
Chickens are one of the most important sources of meat worldwide, and the occurrence of fatty liver syndrome (FLS) is closely related to production efficiency. However, the potential mechanism of FLS remains poorly understood. An integrated analysis of data from whole-genome bisulfite sequencing and long noncoding RNA (lncRNA) sequencing was conducted. A total of 1177 differentially expressed genes (DEGs) and 1442 differentially methylated genes (DMGs) were found. There were 72% of 83 lipid- and glucose-related genes upregulated; 81% of 150 immune-related genes were downregulated in fatty livers. Part of those genes was within differentially methylated regions (DMRs). Besides, sixty-seven lncRNAs were identified differentially expressed and divided into 13 clusters based on their expression pattern. Some lipid- and glucose-related lncRNAs (e.g., LNC_006756, LNC_012355, and LNC_005024) and immune-related lncRNAs (e.g., LNC_010111, LNC_010862, and LNC_001272) were found through a co-expression network and functional annotation. From the expression and epigenetic profiles, 23 target genes (e.g., , , and ) were found to be hub genes that were regulated by both methylation and lncRNAs. We have provided comprehensive epigenetic and transcriptomic profiles on FLS in chicken, and the identification of key genes and epigenetic markers will expand our understanding of the molecular mechanism of chicken FLS.
鸡是全球最重要的肉类来源之一，脂肪肝综合征（FLS）的发生与生产效率密切相关。然而，FLS 的潜在机制仍知之甚少。本研究对全基因组亚硫酸氢盐测序和长非编码 RNA（lncRNA）测序数据进行了综合分析。共发现 1177 个差异表达基因（DEGs）和 1442 个差异甲基化基因（DMGs）。83 个与脂质和葡萄糖相关的基因中有 72%上调；150 个与免疫相关的基因中有 81%下调。这些基因中的一部分位于差异甲基化区域（DMRs）内。此外，鉴定出 67 个差异表达的 lncRNA，并根据其表达模式分为 13 个簇。一些与脂质和葡萄糖相关的 lncRNA（例如，LNC_006756、LNC_012355 和 LNC_005024）和免疫相关的 lncRNA（例如，LNC_010111、LNC_010862 和 LNC_001272）通过共表达网络和功能注释被发现。根据表达和表观遗传谱，发现 23 个靶基因（例如，、、和）是受甲基化和 lncRNA 共同调控的枢纽基因。本研究为鸡 FLS 提供了全面的表观遗传和转录组学图谱，关键基因和表观遗传标记的鉴定将扩展我们对鸡 FLS 分子机制的理解。
