Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig

Abstract The difference between the skeletal muscle growth rates of Western and domestic breeds is remarkable, but the potential regulatory mechanism involved is still unclear. Numerous studies have pointed out that long intergenic noncoding RNA (lincRNA) plays a key role in skeletal muscle developm...

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Autores principales:	Ziying Huang, Qianqian Li, Mengxun Li, Changchun Li
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/f9eba7c78ba644a6af436018d4ce6142
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spelling	oai:doaj.org-article:f9eba7c78ba644a6af436018d4ce61422021-12-02T13:24:37ZTranscriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig10.1038/s41598-021-82126-22045-2322https://doaj.org/article/f9eba7c78ba644a6af436018d4ce61422021-01-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-82126-2https://doaj.org/toc/2045-2322Abstract The difference between the skeletal muscle growth rates of Western and domestic breeds is remarkable, but the potential regulatory mechanism involved is still unclear. Numerous studies have pointed out that long intergenic noncoding RNA (lincRNA) plays a key role in skeletal muscle development. This study used published Yorkshire (LW) and Tibetan pig (TP) transcriptome data to explore the possible role of lincRNA in the difference in skeletal muscle development between the two breeds. 138 differentially expressed lincRNAs (DELs) were obtained between the two breeds, and their potential target genes (PTGs) were predicted. The results of GO and KEGG analysis revealed that PTGs are involved in multiple biological processes and pathways related to muscle development. The quantitative trait loci (QTLs) of DELs were predicted, and the results showed that most QTLs are related to muscle development. Finally, we constructed a co-expression network between muscle development related PTGs (MDRPTGs) and their corresponding DELs on the basis of their expression levels. The expression of DELs was significantly correlated with the corresponding MDRPTGs. Also, multiple MDRPTGs are involved in the key regulatory pathway of muscle fiber hypertrophy, which is the IGF-1-AKT-mTOR pathway. In summary, multiple lincRNAs that may cause differences in skeletal muscle development between the two breeds were identified, and their possible regulatory roles were explored. The findings of this study may provide a valuable reference for further research on the role of lincRNA in skeletal muscle development.Ziying HuangQianqian LiMengxun LiChangchun LiNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Ziying Huang Qianqian Li Mengxun Li Changchun Li Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
description	Abstract The difference between the skeletal muscle growth rates of Western and domestic breeds is remarkable, but the potential regulatory mechanism involved is still unclear. Numerous studies have pointed out that long intergenic noncoding RNA (lincRNA) plays a key role in skeletal muscle development. This study used published Yorkshire (LW) and Tibetan pig (TP) transcriptome data to explore the possible role of lincRNA in the difference in skeletal muscle development between the two breeds. 138 differentially expressed lincRNAs (DELs) were obtained between the two breeds, and their potential target genes (PTGs) were predicted. The results of GO and KEGG analysis revealed that PTGs are involved in multiple biological processes and pathways related to muscle development. The quantitative trait loci (QTLs) of DELs were predicted, and the results showed that most QTLs are related to muscle development. Finally, we constructed a co-expression network between muscle development related PTGs (MDRPTGs) and their corresponding DELs on the basis of their expression levels. The expression of DELs was significantly correlated with the corresponding MDRPTGs. Also, multiple MDRPTGs are involved in the key regulatory pathway of muscle fiber hypertrophy, which is the IGF-1-AKT-mTOR pathway. In summary, multiple lincRNAs that may cause differences in skeletal muscle development between the two breeds were identified, and their possible regulatory roles were explored. The findings of this study may provide a valuable reference for further research on the role of lincRNA in skeletal muscle development.
format	article
author	Ziying Huang Qianqian Li Mengxun Li Changchun Li
author_facet	Ziying Huang Qianqian Li Mengxun Li Changchun Li
author_sort	Ziying Huang
title	Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
title_short	Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
title_full	Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
title_fullStr	Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
title_full_unstemmed	Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig
title_sort	transcriptome analysis reveals the long intergenic noncoding rnas contributed to skeletal muscle differences between yorkshire and tibetan pig
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/f9eba7c78ba644a6af436018d4ce6142
work_keys_str_mv	AT ziyinghuang transcriptomeanalysisrevealsthelongintergenicnoncodingrnascontributedtoskeletalmuscledifferencesbetweenyorkshireandtibetanpig AT qianqianli transcriptomeanalysisrevealsthelongintergenicnoncodingrnascontributedtoskeletalmuscledifferencesbetweenyorkshireandtibetanpig AT mengxunli transcriptomeanalysisrevealsthelongintergenicnoncodingrnascontributedtoskeletalmuscledifferencesbetweenyorkshireandtibetanpig AT changchunli transcriptomeanalysisrevealsthelongintergenicnoncodingrnascontributedtoskeletalmuscledifferencesbetweenyorkshireandtibetanpig
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Transcriptome analysis reveals the long intergenic noncoding RNAs contributed to skeletal muscle differences between Yorkshire and Tibetan pig

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