Transcriptome profile of liver at different physiological stages reveals potential mode for lipid metabolism in laying hens.
Transcriptome profile of liver at different physiological stages reveals potential mode for lipid metabolism in laying hens.
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DOI：
10.1186/s12864-015-1943-0
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发表时间：
2015-10-09
期刊：
影响因子：
4.4
通讯作者：
Liu X
中科院分区：
文献类型：
--
作者：
Li H;Wang T;Xu C;Wang D;Ren J;Li Y;Tian Y;Wang Y;Jiao Y;Kang X;Liu X
肝脏是重要的代谢器官，在脂质合成、降解和转运中起关键作用；然而，鸡脂质代谢的分子调控机制尚不清楚。本研究采用RNA-Seq技术研究了幼鸡和蛋鸡肝脏脂质代谢相关基因及相关通路的表达谱差异。本研究旨在拓宽对鸡肝脏脂质代谢的认识，从而有助于提高家禽业的产蛋性能。对雏鸡（n = 3）和产蛋鸡（n = 3）肝脏中采集的总RNA进行RNA- seq分析。与雏鸡相比，产蛋鸡共获得差异表达基因2567个，其中上调基因1082个，下调基因1485个，P≤0.05，其中显著差异表达基因960个，错误发现率(FDR)≤0.05，倍数变化≥2或≤0.5。此外，198个SDE新基因（91个上调，107个下调）中大部分被发现高表达，并鉴定出332个SDE同种异构体。基因本体（GO）富集和KEGG （Kyoto Encyclopedia of Genes and Genomes）通路分析显示，SDE基因在类固醇生物合成、PPAR信号通路、不饱和脂肪酸生物合成、甘油磷脂代谢、3种氨基酸通路和丙酮酸代谢中富集最多（P≤0.05）。SDE基因中最显著富集的GO项包括脂质生物合成、胆固醇和甾醇代谢和氧化还原，表明主要的脂肪生成发生在蛋鸡肝脏。本研究提示，蛋鸡肝脏转录组水平的大部分变化与脂肪代谢密切相关。检测到的一些SDE未表征的新基因和选择性剪接异构体也可能参与脂质代谢，尽管这需要进一步研究。本研究为鸡肝脏mrna的表达谱提供了有价值的信息，对这些mrna功能的深入研究可以为鸡肝脏脂质代谢的分子网络提供新的见解。本文的在线版本（doi:10.1186/s12864-015-1943-0）包含补充材料，可供授权用户使用。
Liver is an important metabolic organ that plays a critical role in lipid synthesis, degradation, and transport; however, the molecular regulatory mechanisms of lipid metabolism remain unclear in chicken. In this study, RNA-Seq technology was used to investigate differences in expression profiles of hepatic lipid metabolism-related genes and associated pathways between juvenile and laying hens. The study aimed to broaden the understanding of liver lipid metabolism in chicken, and thereby to help improve laying performance in the poultry industry. RNA-Seq analysis was carried out on total RNA harvested from the liver of juvenile (n = 3) and laying (n = 3) hens. Compared with juvenile hens, 2567 differentially expressed genes (1082 up-regulated and 1485 down-regulated) with P ≤ 0.05 were obtained in laying hens, and 960 of these genes were significantly differentially expressed (SDE) at a false discovery rate (FDR) of ≤0.05 and fold-change ≥2 or ≤0.5. In addition, most of the 198 SDE novel genes (91 up-regulated and 107 down-regulated) were discovered highly expressed, and 332 SDE isoforms were identified. Gene ontology (GO) enrichment and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway analysis showed that the SDE genes were most enrichment in steroid biosynthesis, PPAR signaling pathway, biosynthesis of unsaturated fatty acids, glycerophospholipid metabolism, three amino acid pathways, and pyruvate metabolism (P ≤ 0.05). The top significantly enriched GO terms among the SDE genes included lipid biosynthesis, cholesterol and sterol metabolic, and oxidation reduction, indicating that principal lipogenesis occurred in the liver of laying hens. This study suggests that the majority of changes at the transcriptome level in laying hen liver were closely related to fat metabolism. Some of the SDE uncharacterized novel genes and alternative splicing isoforms that were detected might also take part in lipid metabolism, although this needs further investigation. This study provides valuable information about the expression profiles of mRNAs from chicken liver, and in-depth functional investigations of these mRNAs could provide new insights into the molecular networks of lipid metabolism in chicken liver. The online version of this article (doi:10.1186/s12864-015-1943-0) contains supplementary material, which is available to authorized users.