Cargando…

Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition

BACKGROUND: The level of fat deposition in carcass is a crucial factor influencing meat quality. Guangling Large-Tailed (GLT) and Small-Tailed Han (STH) sheep are important local Chinese fat-tailed breeds that show distinct patterns of fat depots. To gain a better understanding of fat deposition, tr...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, Baojun, Qiao, Liying, An, Lixia, Wang, Weiwei, Liu, Jianhua, Ren, Youshe, Pan, Yangyang, Jing, Jiongjie, Liu, Wenzhong
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5941690/
https://www.ncbi.nlm.nih.gov/pubmed/29739312
http://dx.doi.org/10.1186/s12864-018-4747-1
_version_ 1783321337030246400
author Li, Baojun
Qiao, Liying
An, Lixia
Wang, Weiwei
Liu, Jianhua
Ren, Youshe
Pan, Yangyang
Jing, Jiongjie
Liu, Wenzhong
author_facet Li, Baojun
Qiao, Liying
An, Lixia
Wang, Weiwei
Liu, Jianhua
Ren, Youshe
Pan, Yangyang
Jing, Jiongjie
Liu, Wenzhong
author_sort Li, Baojun
collection PubMed
description BACKGROUND: The level of fat deposition in carcass is a crucial factor influencing meat quality. Guangling Large-Tailed (GLT) and Small-Tailed Han (STH) sheep are important local Chinese fat-tailed breeds that show distinct patterns of fat depots. To gain a better understanding of fat deposition, transcriptome profiles were determined by RNA-sequencing of perirenal, subcutaneous, and tail fat tissues from both the sheep breeds. The common highly expressed genes (co-genes) in all the six tissues, and the genes that were differentially expressed (DE genes) between these two breeds in the corresponding tissues were analyzed. RESULTS: Approximately 47 million clean reads were obtained for each sample, and a total of 17,267 genes were annotated. Of the 47 highly expressed co-genes, FABP4, ADIPOQ, FABP5, and CD36 were the four most highly transcribed genes among all the known genes related to adipose deposition. FHC, FHC-pseudogene, and ZC3H10 were also highly expressed genes and could, thus, have roles in fat deposition. A total of 2091, 4233, and 4131 DE genes were identified in the perirenal, subcutaneous, and tail fat tissues between the GLT and STH breeds, respectively. Gene Ontology (GO) analysis showed that some DE genes were associated with adipose metabolism. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed that PPAR signaling pathway and ECM-receptor interaction were specifically enriched. Four genes, namely LOC101102230, PLTP, C1QTNF7, and OLR1 were up-regulated and two genes, SCD and UCP-1, were down-regulated in all the tested tissues of STH. Among the genes involved in ECM–receptor interaction, the genes encoding collagens, laminins, and integrins were quite different depending on the depots or the breeds. In STH, genes such as LAMB3, RELN, TNXB, and ITGA8, were identified to be up regulated and LAMB4 was observed to be down regulated. CONCLUSIONS: This study unravels the complex transcriptome profiles in sheep fat tissues, highlighting the candidate genes involved in fat deposition. Further studies are needed to investigate the roles of the candidate genes in fat deposition and in determining the meat quality of sheep. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-4747-1) contains supplementary material, which is available to authorized users.
format Online
Article
Text
id pubmed-5941690
institution National Center for Biotechnology Information
language English
publishDate 2018
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-59416902018-05-14 Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition Li, Baojun Qiao, Liying An, Lixia Wang, Weiwei Liu, Jianhua Ren, Youshe Pan, Yangyang Jing, Jiongjie Liu, Wenzhong BMC Genomics Research Article BACKGROUND: The level of fat deposition in carcass is a crucial factor influencing meat quality. Guangling Large-Tailed (GLT) and Small-Tailed Han (STH) sheep are important local Chinese fat-tailed breeds that show distinct patterns of fat depots. To gain a better understanding of fat deposition, transcriptome profiles were determined by RNA-sequencing of perirenal, subcutaneous, and tail fat tissues from both the sheep breeds. The common highly expressed genes (co-genes) in all the six tissues, and the genes that were differentially expressed (DE genes) between these two breeds in the corresponding tissues were analyzed. RESULTS: Approximately 47 million clean reads were obtained for each sample, and a total of 17,267 genes were annotated. Of the 47 highly expressed co-genes, FABP4, ADIPOQ, FABP5, and CD36 were the four most highly transcribed genes among all the known genes related to adipose deposition. FHC, FHC-pseudogene, and ZC3H10 were also highly expressed genes and could, thus, have roles in fat deposition. A total of 2091, 4233, and 4131 DE genes were identified in the perirenal, subcutaneous, and tail fat tissues between the GLT and STH breeds, respectively. Gene Ontology (GO) analysis showed that some DE genes were associated with adipose metabolism. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed that PPAR signaling pathway and ECM-receptor interaction were specifically enriched. Four genes, namely LOC101102230, PLTP, C1QTNF7, and OLR1 were up-regulated and two genes, SCD and UCP-1, were down-regulated in all the tested tissues of STH. Among the genes involved in ECM–receptor interaction, the genes encoding collagens, laminins, and integrins were quite different depending on the depots or the breeds. In STH, genes such as LAMB3, RELN, TNXB, and ITGA8, were identified to be up regulated and LAMB4 was observed to be down regulated. CONCLUSIONS: This study unravels the complex transcriptome profiles in sheep fat tissues, highlighting the candidate genes involved in fat deposition. Further studies are needed to investigate the roles of the candidate genes in fat deposition and in determining the meat quality of sheep. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-4747-1) contains supplementary material, which is available to authorized users. BioMed Central 2018-05-08 /pmc/articles/PMC5941690/ /pubmed/29739312 http://dx.doi.org/10.1186/s12864-018-4747-1 Text en © The Author(s). 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Li, Baojun
Qiao, Liying
An, Lixia
Wang, Weiwei
Liu, Jianhua
Ren, Youshe
Pan, Yangyang
Jing, Jiongjie
Liu, Wenzhong
Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title_full Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title_fullStr Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title_full_unstemmed Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title_short Transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
title_sort transcriptome analysis of adipose tissues from two fat-tailed sheep breeds reveals key genes involved in fat deposition
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5941690/
https://www.ncbi.nlm.nih.gov/pubmed/29739312
http://dx.doi.org/10.1186/s12864-018-4747-1
work_keys_str_mv AT libaojun transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT qiaoliying transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT anlixia transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT wangweiwei transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT liujianhua transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT renyoushe transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT panyangyang transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT jingjiongjie transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition
AT liuwenzhong transcriptomeanalysisofadiposetissuesfromtwofattailedsheepbreedsrevealskeygenesinvolvedinfatdeposition