Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits

Guoze Wang,1,2,* Kun Du,1,* Zhenjian Xie,3 Renyong Tang,3 Xianbo Jia,1 Shiyi Chen,1 Songjia Lai1 1Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, People’s Republic of China; 2College of Food Scien...

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Autores principales:	Wang G, Du K, Xie Z, Tang R, Jia X, Chen S, Lai S
Formato:	article
Lenguaje:	EN
Publicado:	Dove Medical Press 2020
Materias:	rabbit rna-seq adipose tissue growth protein-coding gene fat deposition. Specialties of internal medicine RC581-951
Acceso en línea:	https://doaj.org/article/e576a63a927a4ad791a71c5d720ab600
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spelling	oai:doaj.org-article:e576a63a927a4ad791a71c5d720ab6002021-12-02T14:50:24ZScreening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits1178-7007https://doaj.org/article/e576a63a927a4ad791a71c5d720ab6002020-12-01T00:00:00Zhttps://www.dovepress.com/screening-and-identification-of-differentially-expressed-and-adipose-g-peer-reviewed-article-DMSOhttps://doaj.org/toc/1178-7007Guoze Wang,1,2,* Kun Du,1,* Zhenjian Xie,3 Renyong Tang,3 Xianbo Jia,1 Shiyi Chen,1 Songjia Lai1 1Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, People’s Republic of China; 2College of Food Science, Guizhou Medical University, Guiyang 550025, People’s Republic of China; 3College of Pharmacy and Biological Engineering, Chengdu University, Chengdu 610106, People’s Republic of China*These authors contributed equally to this workCorrespondence: Songjia Lai Email laisj5794@163.comBackground: Rabbit is a good model for genetic and medical studies in other livestock species. The rabbit shows low adipose tissue deposition, and the phenomena indicates that there is some specificity of adipose deposition during the rabbit growth. However, little is known about genes that regulate the growth of adipose tissue in rabbits.Materials and Methods: Deep RNA-seq and comprehensive bioinformatics analyses were used to characterize the genes of rabbit visceral adipose tissue (VAT) at 35, 85 and 120 days after birth. Differentially expressed genes (DEGs) were identified at the three growth stages by DESeq. To explore the function of the candidate genes, Gene Ontology (GO) enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed. Six DEGs were randomly selected, and their expression profiles were validated by q-PCR.Results: A total of 20,303 known transcripts and 99,199 new transcripts from 8 RNA sequencing libraries were identified, and 34 differentially expressed genes (DEGs) were screened. GO enrichment and KEGG pathway analyses revealed that the DEGs were mainly involved in lipid metabolism regulation including acylglycerol metabolic process and mobilization, and decomposition of lipids to generate ATP in adipocytes and fatty acid metabolism, included LOC100342322 and LOC100342572. In addition, 133 protein-coding genes that play a role in adipose growth and development were screened, including acyl-CoA synthetase long-chain family member 5 (ACSL5) and fatty acid-binding protein 2 (FABP2). The validation results of six DEGs by q-PCR showed similar trends with the results of RNA-seq.Conclusion: In summary, this study provides the first report of the coding genes profiles of rabbit adipose tissue during different growth stages. These data allow for the identification of candidate genes for subsequent studies on rabbit genetics and regulation of adipose cells, and provide an animal model for studying obesity in humans.Keywords: rabbit, RNA-seq, adipose tissue, growth, protein-coding gene, fat depositionWang GDu KXie ZTang RJia XChen SLai SDove Medical Pressarticlerabbitrna-seqadipose tissuegrowthprotein-coding genefat deposition.Specialties of internal medicineRC581-951ENDiabetes, Metabolic Syndrome and Obesity: Targets and Therapy, Vol Volume 13, Pp 4669-4680 (2020)
institution	DOAJ
collection	DOAJ
language	EN
topic	rabbit rna-seq adipose tissue growth protein-coding gene fat deposition. Specialties of internal medicine RC581-951
spellingShingle	rabbit rna-seq adipose tissue growth protein-coding gene fat deposition. Specialties of internal medicine RC581-951 Wang G Du K Xie Z Tang R Jia X Chen S Lai S Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
description	Guoze Wang,1,2,* Kun Du,1,* Zhenjian Xie,3 Renyong Tang,3 Xianbo Jia,1 Shiyi Chen,1 Songjia Lai1 1Farm Animal Genetic Resources Exploration and Innovation Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, People’s Republic of China; 2College of Food Science, Guizhou Medical University, Guiyang 550025, People’s Republic of China; 3College of Pharmacy and Biological Engineering, Chengdu University, Chengdu 610106, People’s Republic of China*These authors contributed equally to this workCorrespondence: Songjia Lai Email laisj5794@163.comBackground: Rabbit is a good model for genetic and medical studies in other livestock species. The rabbit shows low adipose tissue deposition, and the phenomena indicates that there is some specificity of adipose deposition during the rabbit growth. However, little is known about genes that regulate the growth of adipose tissue in rabbits.Materials and Methods: Deep RNA-seq and comprehensive bioinformatics analyses were used to characterize the genes of rabbit visceral adipose tissue (VAT) at 35, 85 and 120 days after birth. Differentially expressed genes (DEGs) were identified at the three growth stages by DESeq. To explore the function of the candidate genes, Gene Ontology (GO) enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analyses were performed. Six DEGs were randomly selected, and their expression profiles were validated by q-PCR.Results: A total of 20,303 known transcripts and 99,199 new transcripts from 8 RNA sequencing libraries were identified, and 34 differentially expressed genes (DEGs) were screened. GO enrichment and KEGG pathway analyses revealed that the DEGs were mainly involved in lipid metabolism regulation including acylglycerol metabolic process and mobilization, and decomposition of lipids to generate ATP in adipocytes and fatty acid metabolism, included LOC100342322 and LOC100342572. In addition, 133 protein-coding genes that play a role in adipose growth and development were screened, including acyl-CoA synthetase long-chain family member 5 (ACSL5) and fatty acid-binding protein 2 (FABP2). The validation results of six DEGs by q-PCR showed similar trends with the results of RNA-seq.Conclusion: In summary, this study provides the first report of the coding genes profiles of rabbit adipose tissue during different growth stages. These data allow for the identification of candidate genes for subsequent studies on rabbit genetics and regulation of adipose cells, and provide an animal model for studying obesity in humans.Keywords: rabbit, RNA-seq, adipose tissue, growth, protein-coding gene, fat deposition
format	article
author	Wang G Du K Xie Z Tang R Jia X Chen S Lai S
author_facet	Wang G Du K Xie Z Tang R Jia X Chen S Lai S
author_sort	Wang G
title	Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
title_short	Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
title_full	Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
title_fullStr	Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
title_full_unstemmed	Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits
title_sort	screening and identification of differentially expressed and adipose growth-related protein-coding genes during the deposition of perirenal adipose tissue in rabbits
publisher	Dove Medical Press
publishDate	2020
url	https://doaj.org/article/e576a63a927a4ad791a71c5d720ab600
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Screening and Identification of Differentially Expressed and Adipose Growth-Related Protein-Coding Genes During the Deposition of Perirenal Adipose Tissue in Rabbits

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