Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle

Abstract Water holding capacity (WHC) is an important sensory attribute that greatly influences meat quality. However, the molecular mechanism that regulates the beef WHC remains to be elucidated. In this study, the longissimus dorsi (LD) muscles of 49 Chinese Simmental beef cattle were measured for...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Lili Du, Tianpeng Chang, Bingxing An, Mang Liang, Xinghai Duan, Wentao Cai, Bo Zhu, Xue Gao, Yan Chen, Lingyang Xu, Lupei Zhang, Junya Li, Huijiang Gao
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/807e7b0a526e4c28b17663279f2cce7b
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:807e7b0a526e4c28b17663279f2cce7b
record_format	dspace
spelling	oai:doaj.org-article:807e7b0a526e4c28b17663279f2cce7b2021-12-02T17:34:31ZTranscriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle10.1038/s41598-021-91373-22045-2322https://doaj.org/article/807e7b0a526e4c28b17663279f2cce7b2021-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-91373-2https://doaj.org/toc/2045-2322Abstract Water holding capacity (WHC) is an important sensory attribute that greatly influences meat quality. However, the molecular mechanism that regulates the beef WHC remains to be elucidated. In this study, the longissimus dorsi (LD) muscles of 49 Chinese Simmental beef cattle were measured for meat quality traits and subjected to RNA sequencing. WHC had significant correlation with 35 kg water loss (r = − 0.99, p < 0.01) and IMF content (r = 0.31, p < 0.05), but not with SF (r = − 0.20, p = 0.18) and pH (r = 0.11, p = 0.44). Eight individuals with the highest WHC (H-WHC) and the lowest WHC (L-WHC) were selected for transcriptome analysis. A total of 865 genes were identified as differentially expressed genes (DEGs) between two groups, of which 633 genes were up-regulated and 232 genes were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment revealed that DEGs were significantly enriched in 15 GO terms and 96 pathways. Additionally, based on protein–protein interaction (PPI) network, animal QTL database (QTLdb), and relevant literature, the study not only confirmed seven genes (HSPA12A, HSPA13, PPARγ, MYL2, MYPN, TPI, and ATP2A1) influenced WHC in accordance with previous studies, but also identified ATP2B4, ACTN1, ITGAV, TGFBR1, THBS1, and TEK as the most promising novel candidate genes affecting the WHC. These findings could offer important insight for exploring the molecular mechanism underlying the WHC trait and facilitate the improvement of beef quality.Lili DuTianpeng ChangBingxing AnMang LiangXinghai DuanWentao CaiBo ZhuXue GaoYan ChenLingyang XuLupei ZhangJunya LiHuijiang GaoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-14 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Lili Du Tianpeng Chang Bingxing An Mang Liang Xinghai Duan Wentao Cai Bo Zhu Xue Gao Yan Chen Lingyang Xu Lupei Zhang Junya Li Huijiang Gao Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
description	Abstract Water holding capacity (WHC) is an important sensory attribute that greatly influences meat quality. However, the molecular mechanism that regulates the beef WHC remains to be elucidated. In this study, the longissimus dorsi (LD) muscles of 49 Chinese Simmental beef cattle were measured for meat quality traits and subjected to RNA sequencing. WHC had significant correlation with 35 kg water loss (r = − 0.99, p < 0.01) and IMF content (r = 0.31, p < 0.05), but not with SF (r = − 0.20, p = 0.18) and pH (r = 0.11, p = 0.44). Eight individuals with the highest WHC (H-WHC) and the lowest WHC (L-WHC) were selected for transcriptome analysis. A total of 865 genes were identified as differentially expressed genes (DEGs) between two groups, of which 633 genes were up-regulated and 232 genes were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment revealed that DEGs were significantly enriched in 15 GO terms and 96 pathways. Additionally, based on protein–protein interaction (PPI) network, animal QTL database (QTLdb), and relevant literature, the study not only confirmed seven genes (HSPA12A, HSPA13, PPARγ, MYL2, MYPN, TPI, and ATP2A1) influenced WHC in accordance with previous studies, but also identified ATP2B4, ACTN1, ITGAV, TGFBR1, THBS1, and TEK as the most promising novel candidate genes affecting the WHC. These findings could offer important insight for exploring the molecular mechanism underlying the WHC trait and facilitate the improvement of beef quality.
format	article
author	Lili Du Tianpeng Chang Bingxing An Mang Liang Xinghai Duan Wentao Cai Bo Zhu Xue Gao Yan Chen Lingyang Xu Lupei Zhang Junya Li Huijiang Gao
author_facet	Lili Du Tianpeng Chang Bingxing An Mang Liang Xinghai Duan Wentao Cai Bo Zhu Xue Gao Yan Chen Lingyang Xu Lupei Zhang Junya Li Huijiang Gao
author_sort	Lili Du
title	Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
title_short	Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
title_full	Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
title_fullStr	Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
title_full_unstemmed	Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle
title_sort	transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in chinese simmental beef cattle
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/807e7b0a526e4c28b17663279f2cce7b
work_keys_str_mv	AT lilidu transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT tianpengchang transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT bingxingan transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT mangliang transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT xinghaiduan transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT wentaocai transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT bozhu transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT xuegao transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT yanchen transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT lingyangxu transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT lupeizhang transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT junyali transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle AT huijianggao transcriptomeprofilinganalysisofmuscletissuerevealspotentialcandidategenesaffectingwaterholdingcapacityinchinesesimmentalbeefcattle
_version_	1718379950251180032

Transcriptome profiling analysis of muscle tissue reveals potential candidate genes affecting water holding capacity in Chinese Simmental beef cattle

Ejemplares similares