Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis

Abstract To provide new ideas for improving meat quality and generating new breeds of cattle, the important candidate genes affecting fat deposition in two kinds of cattle were identified. Eighteen months Shandong black cattle (n = 3) and Luxi cattle (n = 3) were randomly assigned into two environme...

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Autores principales:	Ruili Liu, Xianxun Liu, Xuejin Bai, Chaozhu Xiao, Yajuan Dong
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2020
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/60a2f821c12548e1bc11e733a6db805a
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spelling	oai:doaj.org-article:60a2f821c12548e1bc11e733a6db805a2021-12-02T13:34:11ZDifferent expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis10.1038/s41598-020-79086-42045-2322https://doaj.org/article/60a2f821c12548e1bc11e733a6db805a2020-12-01T00:00:00Zhttps://doi.org/10.1038/s41598-020-79086-4https://doaj.org/toc/2045-2322Abstract To provide new ideas for improving meat quality and generating new breeds of cattle, the important candidate genes affecting fat deposition in two kinds of cattle were identified. Eighteen months Shandong black cattle (n = 3) and Luxi cattle (n = 3) were randomly assigned into two environmental. The longissimus dorsi muscles of Shandong Black Cattle and Luxi Cattle were collected and analyzed by fatty acid determination, high-throughput sequencing transcriptomics, qRT-PCR expression profile and western blot. The ratio of unsaturated fatty acids to saturated fatty acids was 1.37:1 and 1.24:1 in the muscle tissues of Shandong black cattle and Luxi cattle, respectively. The results of RNA-Seq analysis revealed 1320 DEGs between the longissimus dorsi of Shandong black cattle and Luxi cattle. A total of 867 genes were upregulated, and the other 453 genes were downregulated. With GO enrichment analysis, it was found that the identified DEGs were significantly enriched in regulation of the Wnt signaling pathway, negative regulation of the Wnt signaling pathway, cAMP metabolic process, fat cell differentiation and among other functions. We found that regulation of lipolysis in adipocytes was the significant enrichment pathway of upregulated genes and downregulated genes, PPAR signaling pathway and AMPK signaling pathway are highly representative pathways of lipid metabolism in Shandong black cattle. Network analysis showed that PPARGC1A, ADCY4, ANKRD6, COL1A1, FABP4, ADIPOQ, PLIN1, PLIN2, and LIPE genes were correlated with key loci genes in multiple metabolic pathways. Meanwhile we found that FABP4 and ADIPOQ had 7 common regulatory factors in different genes, which were PLIN1, PLIN2, PPARGC1A, RXRA, PCK1, LEPR, LEP. These genes were involved in regulation of lipolysis in adipocytes, adipocytokine signaling pathway, PPAR signaling pathway. FABP4 and ADIPOQ were selected as important candidate marker genes for fat deposition based on the results.Ruili LiuXianxun LiuXuejin BaiChaozhu XiaoYajuan DongNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 10, Iss 1, Pp 1-14 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ruili Liu Xianxun Liu Xuejin Bai Chaozhu Xiao Yajuan Dong Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
description	Abstract To provide new ideas for improving meat quality and generating new breeds of cattle, the important candidate genes affecting fat deposition in two kinds of cattle were identified. Eighteen months Shandong black cattle (n = 3) and Luxi cattle (n = 3) were randomly assigned into two environmental. The longissimus dorsi muscles of Shandong Black Cattle and Luxi Cattle were collected and analyzed by fatty acid determination, high-throughput sequencing transcriptomics, qRT-PCR expression profile and western blot. The ratio of unsaturated fatty acids to saturated fatty acids was 1.37:1 and 1.24:1 in the muscle tissues of Shandong black cattle and Luxi cattle, respectively. The results of RNA-Seq analysis revealed 1320 DEGs between the longissimus dorsi of Shandong black cattle and Luxi cattle. A total of 867 genes were upregulated, and the other 453 genes were downregulated. With GO enrichment analysis, it was found that the identified DEGs were significantly enriched in regulation of the Wnt signaling pathway, negative regulation of the Wnt signaling pathway, cAMP metabolic process, fat cell differentiation and among other functions. We found that regulation of lipolysis in adipocytes was the significant enrichment pathway of upregulated genes and downregulated genes, PPAR signaling pathway and AMPK signaling pathway are highly representative pathways of lipid metabolism in Shandong black cattle. Network analysis showed that PPARGC1A, ADCY4, ANKRD6, COL1A1, FABP4, ADIPOQ, PLIN1, PLIN2, and LIPE genes were correlated with key loci genes in multiple metabolic pathways. Meanwhile we found that FABP4 and ADIPOQ had 7 common regulatory factors in different genes, which were PLIN1, PLIN2, PPARGC1A, RXRA, PCK1, LEPR, LEP. These genes were involved in regulation of lipolysis in adipocytes, adipocytokine signaling pathway, PPAR signaling pathway. FABP4 and ADIPOQ were selected as important candidate marker genes for fat deposition based on the results.
format	article
author	Ruili Liu Xianxun Liu Xuejin Bai Chaozhu Xiao Yajuan Dong
author_facet	Ruili Liu Xianxun Liu Xuejin Bai Chaozhu Xiao Yajuan Dong
author_sort	Ruili Liu
title	Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
title_short	Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
title_full	Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
title_fullStr	Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
title_full_unstemmed	Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis
title_sort	different expression of lipid metabolism-related genes in shandong black cattle and luxi cattle based on transcriptome analysis
publisher	Nature Portfolio
publishDate	2020
url	https://doaj.org/article/60a2f821c12548e1bc11e733a6db805a
work_keys_str_mv	AT ruililiu differentexpressionoflipidmetabolismrelatedgenesinshandongblackcattleandluxicattlebasedontranscriptomeanalysis AT xianxunliu differentexpressionoflipidmetabolismrelatedgenesinshandongblackcattleandluxicattlebasedontranscriptomeanalysis AT xuejinbai differentexpressionoflipidmetabolismrelatedgenesinshandongblackcattleandluxicattlebasedontranscriptomeanalysis AT chaozhuxiao differentexpressionoflipidmetabolismrelatedgenesinshandongblackcattleandluxicattlebasedontranscriptomeanalysis AT yajuandong differentexpressionoflipidmetabolismrelatedgenesinshandongblackcattleandluxicattlebasedontranscriptomeanalysis
_version_	1718392798310301696

Different expression of lipid metabolism-related genes in Shandong black cattle and Luxi cattle based on transcriptome analysis

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