{"title":"宁乡猪皮下和肌肉脂肪组织转录组差异分析","authors":"Fang Wang, Yue-Bo Zhang, Qian Jiang, Yu-Long Yin, Bi-E Tan, Jia-Shun Chen","doi":"10.16288/j.yczz.23-131","DOIUrl":null,"url":null,"abstract":"<p><p>To compare and analyze the molecular mechanisms of adipose deposition in subcutaneous fat (SAF)and intramuscular fat (IMF) tissues in Ningxiang pigs, differential gene expression profiles in SAF and IMF tissues of Ningxiang pigs were identified and analysed using RNA-seq technology. Six healthy 250-day-old male Ningxiang pigs with similar body weights (approximately 85 kg) of intraspecific individuals were selected as experimental material and samples of SAF and IMF tissues were collected. Differential genes associated with fat deposition and lipid metabolism were obtained by sequencing two adipose tissue transcriptomes and performing GO (Gene Ontology) functional annotation and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis. To verify the reliability of the sequencing results, six differential genes were randomly selected to validate using qRT-PCR. The results showed that we identified 2406 DEGs, with 1422 up-regulated and 984 down-regulated genes in two tissues. GO functional annotation analysis revealed that the differentially expressed genes were mainly involved in lipid metabolism related pathways, such as steroid biosynthesis, unsaturated fatty acid biosynthesis, glycerophospholipid metabolism and autophagy pathway. KEGG pathway enrichment showed that the differentially expressed genes were mainly enriched in the biological processes related to lipid binding, fatty acid metabolism, glycol ester metabolism, lipid biosynthesis and other biological processes related to lipid metabolism. Genes related to lipid metabolism, such as TCAP, NR4A1, ACACA, LPL, ELOVL6, DGAT1, PRKAA1, ATG101, TP53INP2, FDFT1, ACOX1 and SCD were identified by bioinformatic analyses and verified by qRT-PCR. Our results indicated that these genes may play important roles in the regulation of fat deposition and metabolism in the SAF and IMF tissue, providing the further mechanistic investigation of fat deposition in Ningxiang pigs.</p>","PeriodicalId":35536,"journal":{"name":"遗传","volume":"45 12","pages":"1147-1157"},"PeriodicalIF":0.0000,"publicationDate":"2023-12-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"Analysis of transcriptome differences between subcutaneous and intramuscular adipose tissue of Ningxiang pigs.\",\"authors\":\"Fang Wang, Yue-Bo Zhang, Qian Jiang, Yu-Long Yin, Bi-E Tan, Jia-Shun Chen\",\"doi\":\"10.16288/j.yczz.23-131\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"<p><p>To compare and analyze the molecular mechanisms of adipose deposition in subcutaneous fat (SAF)and intramuscular fat (IMF) tissues in Ningxiang pigs, differential gene expression profiles in SAF and IMF tissues of Ningxiang pigs were identified and analysed using RNA-seq technology. Six healthy 250-day-old male Ningxiang pigs with similar body weights (approximately 85 kg) of intraspecific individuals were selected as experimental material and samples of SAF and IMF tissues were collected. Differential genes associated with fat deposition and lipid metabolism were obtained by sequencing two adipose tissue transcriptomes and performing GO (Gene Ontology) functional annotation and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis. To verify the reliability of the sequencing results, six differential genes were randomly selected to validate using qRT-PCR. The results showed that we identified 2406 DEGs, with 1422 up-regulated and 984 down-regulated genes in two tissues. GO functional annotation analysis revealed that the differentially expressed genes were mainly involved in lipid metabolism related pathways, such as steroid biosynthesis, unsaturated fatty acid biosynthesis, glycerophospholipid metabolism and autophagy pathway. KEGG pathway enrichment showed that the differentially expressed genes were mainly enriched in the biological processes related to lipid binding, fatty acid metabolism, glycol ester metabolism, lipid biosynthesis and other biological processes related to lipid metabolism. Genes related to lipid metabolism, such as TCAP, NR4A1, ACACA, LPL, ELOVL6, DGAT1, PRKAA1, ATG101, TP53INP2, FDFT1, ACOX1 and SCD were identified by bioinformatic analyses and verified by qRT-PCR. Our results indicated that these genes may play important roles in the regulation of fat deposition and metabolism in the SAF and IMF tissue, providing the further mechanistic investigation of fat deposition in Ningxiang pigs.</p>\",\"PeriodicalId\":35536,\"journal\":{\"name\":\"遗传\",\"volume\":\"45 12\",\"pages\":\"1147-1157\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2023-12-20\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"0\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"遗传\",\"FirstCategoryId\":\"1091\",\"ListUrlMain\":\"https://doi.org/10.16288/j.yczz.23-131\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"Q3\",\"JCRName\":\"Medicine\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"遗传","FirstCategoryId":"1091","ListUrlMain":"https://doi.org/10.16288/j.yczz.23-131","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"Q3","JCRName":"Medicine","Score":null,"Total":0}
引用次数: 0
摘要
为了比较和分析宁乡猪皮下脂肪（SAF）和肌内脂肪（IMF）组织脂肪沉积的分子机制，利用RNA-seq技术鉴定和分析了宁乡猪SAF和IMF组织的差异基因表达谱。实验选取 6 头 250 日龄、体重相近（约 85 千克）的健康雄性宁乡猪作为实验材料，采集其 SAF 和 IMF 组织样本。通过对两个脂肪组织转录组测序，并进行GO（基因本体）功能注释和KEGG（京都基因和基因组百科全书）通路富集分析，获得了与脂肪沉积和脂质代谢相关的差异基因。为了验证测序结果的可靠性，我们随机选择了六个差异基因，使用 qRT-PCR 进行验证。结果显示，我们在两个组织中发现了2406个DEGs，其中上调基因1422个，下调基因984个。GO功能注释分析显示，差异表达基因主要涉及脂质代谢相关通路，如类固醇生物合成、不饱和脂肪酸生物合成、甘油磷脂代谢和自噬通路。KEGG 通路富集显示，差异表达基因主要富集在脂质结合、脂肪酸代谢、乙二醇酯代谢、脂质生物合成等与脂质代谢相关的生物过程中。通过生物信息学分析确定了与脂质代谢相关的基因，如 TCAP、NR4A1、ACACA、LPL、ELOVL6、DGAT1、PRKAA1、ATG101、TP53INP2、FDFT1、ACOX1 和 SCD，并通过 qRT-PCR 进行了验证。结果表明，这些基因可能在调控SAF和IMF组织的脂肪沉积和代谢中发挥重要作用，为进一步研究宁乡猪的脂肪沉积机理提供了依据。
Analysis of transcriptome differences between subcutaneous and intramuscular adipose tissue of Ningxiang pigs.
To compare and analyze the molecular mechanisms of adipose deposition in subcutaneous fat (SAF)and intramuscular fat (IMF) tissues in Ningxiang pigs, differential gene expression profiles in SAF and IMF tissues of Ningxiang pigs were identified and analysed using RNA-seq technology. Six healthy 250-day-old male Ningxiang pigs with similar body weights (approximately 85 kg) of intraspecific individuals were selected as experimental material and samples of SAF and IMF tissues were collected. Differential genes associated with fat deposition and lipid metabolism were obtained by sequencing two adipose tissue transcriptomes and performing GO (Gene Ontology) functional annotation and KEGG (Kyoto Encyclopedia of Genes and Genomes) pathway enrichment analysis. To verify the reliability of the sequencing results, six differential genes were randomly selected to validate using qRT-PCR. The results showed that we identified 2406 DEGs, with 1422 up-regulated and 984 down-regulated genes in two tissues. GO functional annotation analysis revealed that the differentially expressed genes were mainly involved in lipid metabolism related pathways, such as steroid biosynthesis, unsaturated fatty acid biosynthesis, glycerophospholipid metabolism and autophagy pathway. KEGG pathway enrichment showed that the differentially expressed genes were mainly enriched in the biological processes related to lipid binding, fatty acid metabolism, glycol ester metabolism, lipid biosynthesis and other biological processes related to lipid metabolism. Genes related to lipid metabolism, such as TCAP, NR4A1, ACACA, LPL, ELOVL6, DGAT1, PRKAA1, ATG101, TP53INP2, FDFT1, ACOX1 and SCD were identified by bioinformatic analyses and verified by qRT-PCR. Our results indicated that these genes may play important roles in the regulation of fat deposition and metabolism in the SAF and IMF tissue, providing the further mechanistic investigation of fat deposition in Ningxiang pigs.
期刊介绍：
Hereditas is a national academic journal sponsored by the Institute of Genetics and Developmental Biology of the Chinese Academy of Sciences and the Chinese Society of Genetics and published by Science Press. It is a Chinese core journal and a Chinese high-quality scientific journal. The journal mainly publishes innovative research papers in the fields of genetics, genomics, cell biology, developmental biology, biological evolution, genetic engineering and biotechnology; new technologies and new methods; monographs and reviews on hot issues in the discipline; academic debates and discussions; experience in genetics teaching; introductions to famous geneticists at home and abroad; genetic counseling; information on academic conferences at home and abroad, etc. Main columns: review, frontier focus, research report, technology and method, resources and platform, experimental operation guide, genetic resources, genetics teaching, scientific news, etc.
求助内容：
应助结果提醒方式：
京公网安备 11010802042870号
