Cargando…

Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs

Porcine skeletal muscle is a highly heterogeneous tissue type, and the Longissimus Dorsi muscle (LDM), as the most economical and physiologically metabolized skeletal muscle in pigs, has always been the focus of research and improvement in pig molecular breeding. Circular RNA, as an important new me...

Descripción completa

Detalles Bibliográficos
Autores principales: Ma, Lixia, Chen, Wei, Li, Shiyin, Qin, Ming, Zeng, Yongqing
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9478749/
https://www.ncbi.nlm.nih.gov/pubmed/36118900
http://dx.doi.org/10.3389/fgene.2022.858763
_version_ 1784790643378225152
author Ma, Lixia
Chen, Wei
Li, Shiyin
Qin, Ming
Zeng, Yongqing
author_facet Ma, Lixia
Chen, Wei
Li, Shiyin
Qin, Ming
Zeng, Yongqing
author_sort Ma, Lixia
collection PubMed
description Porcine skeletal muscle is a highly heterogeneous tissue type, and the Longissimus Dorsi muscle (LDM), as the most economical and physiologically metabolized skeletal muscle in pigs, has always been the focus of research and improvement in pig molecular breeding. Circular RNA, as an important new member of regulatory non-coding RNA after microRNA, has become a frontier hot spot in life science research. This study aims to explore candidate circRNAs related to growth, meat quality, and skeletal muscle development among Duroc pigs with different average daily gain (ADG). Eight pigs were selected and divided into two groups: H group (high-ADG) and L group (low-ADG), followed by RNA-Seq analysis to identify circRNAs. The results showed that backfat at 6-7 rib (BF) and Intramuscular fat (IMF) content in the H group was significantly lower than L group, but ribeye area (REA) in the H group was higher than in the L group. In RNA-seq, 296 Differentially expressed (DE) circRNAs (157 upregulated and 139 downregulated) were identified and exons flanking long introns are easier to circularize to produce circRNAs. Most of the DE circRNAs were enriched in Quantitative trait locus (QTL) regions related to meat quality and growth traits. In addition, a gene can produce one or more circRNA transcripts. It was also found that the source genes of DE circRNAs were enriched in MAPK, FoXO, mTOR, PI3K-Akt, and Wnt signaling pathways. The results showed that different ADG, carcass, and meat quality traits among half-sibling Duroc pigs with the same diet may be due to the DE circRNAs related to skeletal muscle growth and development.
format Online
Article
Text
id pubmed-9478749
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher Frontiers Media S.A.
record_format MEDLINE/PubMed
spelling pubmed-94787492022-09-17 Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs Ma, Lixia Chen, Wei Li, Shiyin Qin, Ming Zeng, Yongqing Front Genet Genetics Porcine skeletal muscle is a highly heterogeneous tissue type, and the Longissimus Dorsi muscle (LDM), as the most economical and physiologically metabolized skeletal muscle in pigs, has always been the focus of research and improvement in pig molecular breeding. Circular RNA, as an important new member of regulatory non-coding RNA after microRNA, has become a frontier hot spot in life science research. This study aims to explore candidate circRNAs related to growth, meat quality, and skeletal muscle development among Duroc pigs with different average daily gain (ADG). Eight pigs were selected and divided into two groups: H group (high-ADG) and L group (low-ADG), followed by RNA-Seq analysis to identify circRNAs. The results showed that backfat at 6-7 rib (BF) and Intramuscular fat (IMF) content in the H group was significantly lower than L group, but ribeye area (REA) in the H group was higher than in the L group. In RNA-seq, 296 Differentially expressed (DE) circRNAs (157 upregulated and 139 downregulated) were identified and exons flanking long introns are easier to circularize to produce circRNAs. Most of the DE circRNAs were enriched in Quantitative trait locus (QTL) regions related to meat quality and growth traits. In addition, a gene can produce one or more circRNA transcripts. It was also found that the source genes of DE circRNAs were enriched in MAPK, FoXO, mTOR, PI3K-Akt, and Wnt signaling pathways. The results showed that different ADG, carcass, and meat quality traits among half-sibling Duroc pigs with the same diet may be due to the DE circRNAs related to skeletal muscle growth and development. Frontiers Media S.A. 2022-09-02 /pmc/articles/PMC9478749/ /pubmed/36118900 http://dx.doi.org/10.3389/fgene.2022.858763 Text en Copyright © 2022 Ma, Chen, Li, Qin and Zeng. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Ma, Lixia
Chen, Wei
Li, Shiyin
Qin, Ming
Zeng, Yongqing
Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title_full Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title_fullStr Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title_full_unstemmed Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title_short Identification and Functional Prediction of Circular RNAs Related to Growth Traits and Skeletal Muscle Development in Duroc pigs
title_sort identification and functional prediction of circular rnas related to growth traits and skeletal muscle development in duroc pigs
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9478749/
https://www.ncbi.nlm.nih.gov/pubmed/36118900
http://dx.doi.org/10.3389/fgene.2022.858763
work_keys_str_mv AT malixia identificationandfunctionalpredictionofcircularrnasrelatedtogrowthtraitsandskeletalmuscledevelopmentindurocpigs
AT chenwei identificationandfunctionalpredictionofcircularrnasrelatedtogrowthtraitsandskeletalmuscledevelopmentindurocpigs
AT lishiyin identificationandfunctionalpredictionofcircularrnasrelatedtogrowthtraitsandskeletalmuscledevelopmentindurocpigs
AT qinming identificationandfunctionalpredictionofcircularrnasrelatedtogrowthtraitsandskeletalmuscledevelopmentindurocpigs
AT zengyongqing identificationandfunctionalpredictionofcircularrnasrelatedtogrowthtraitsandskeletalmuscledevelopmentindurocpigs