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Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle

Shandong black cattle is a new breed of cattle that is developed by applying modern biotechnology, such as somatic cloning, and conventional breeding methods to Luxi cattle. It is very important to study the function and regulatory mechanism of circRNAs in muscle differentiation among different bree...

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Autores principales: Liu, Ruili, Liu, Xianxun, Bai, Xuejin, Xiao, Chaozhu, Dong, Yajuan
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7726199/
https://www.ncbi.nlm.nih.gov/pubmed/33324445
http://dx.doi.org/10.3389/fgene.2020.565085
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author Liu, Ruili
Liu, Xianxun
Bai, Xuejin
Xiao, Chaozhu
Dong, Yajuan
author_facet Liu, Ruili
Liu, Xianxun
Bai, Xuejin
Xiao, Chaozhu
Dong, Yajuan
author_sort Liu, Ruili
collection PubMed
description Shandong black cattle is a new breed of cattle that is developed by applying modern biotechnology, such as somatic cloning, and conventional breeding methods to Luxi cattle. It is very important to study the function and regulatory mechanism of circRNAs in muscle differentiation among different breeds to improve meat quality and meat production performance and to provide new ideas for beef cattle meat quality improvements and new breed development. Therefore, the goal of this study was to sequence and identify circRNAs in muscle tissues of different breeds of cattle. We used RNA-seq to identify circRNAs in the muscles of two breeds of cattle (Shandong black and Luxi). We identified 14,640 circRNAs and found 655 differentially expressed circRNAs. We also analyzed the classification and characteristics of circRNAs in muscle tissue. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses were used on the parental genes of circRNAs. They were mainly involved in a variety of biological processes, such as muscle fiber development, smooth muscle cell proliferation, bone system morphogenesis, tight junctions and the MAPK, AMPK, and mTOR signaling pathways. In addition, we used miRanda to predict the interactions between 14 circRNAs and 11 miRNAs. Based on the above assays, we identified circRNAs (circ0001048, circ0001103, circ0001159, circ0003719, circ0003424, circ0003721, circ0003720, circ0001519, circ0001530, circ0005011, circ0014518, circ0000181, circ0000190, circ0010558) that may play important roles in the regulation of muscle growth and development. Using real-time quantitative PCR, 14 circRNAs were randomly selected to verify the real circRNAs. Luciferase reporter gene system was used to verify the binding site of miR-1 in circ0014518. Our results provide more information about circRNAs regulating muscle development in different breeds of cattle and lay a solid foundation for future experiments.
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spelling pubmed-77261992020-12-14 Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle Liu, Ruili Liu, Xianxun Bai, Xuejin Xiao, Chaozhu Dong, Yajuan Front Genet Genetics Shandong black cattle is a new breed of cattle that is developed by applying modern biotechnology, such as somatic cloning, and conventional breeding methods to Luxi cattle. It is very important to study the function and regulatory mechanism of circRNAs in muscle differentiation among different breeds to improve meat quality and meat production performance and to provide new ideas for beef cattle meat quality improvements and new breed development. Therefore, the goal of this study was to sequence and identify circRNAs in muscle tissues of different breeds of cattle. We used RNA-seq to identify circRNAs in the muscles of two breeds of cattle (Shandong black and Luxi). We identified 14,640 circRNAs and found 655 differentially expressed circRNAs. We also analyzed the classification and characteristics of circRNAs in muscle tissue. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses were used on the parental genes of circRNAs. They were mainly involved in a variety of biological processes, such as muscle fiber development, smooth muscle cell proliferation, bone system morphogenesis, tight junctions and the MAPK, AMPK, and mTOR signaling pathways. In addition, we used miRanda to predict the interactions between 14 circRNAs and 11 miRNAs. Based on the above assays, we identified circRNAs (circ0001048, circ0001103, circ0001159, circ0003719, circ0003424, circ0003721, circ0003720, circ0001519, circ0001530, circ0005011, circ0014518, circ0000181, circ0000190, circ0010558) that may play important roles in the regulation of muscle growth and development. Using real-time quantitative PCR, 14 circRNAs were randomly selected to verify the real circRNAs. Luciferase reporter gene system was used to verify the binding site of miR-1 in circ0014518. Our results provide more information about circRNAs regulating muscle development in different breeds of cattle and lay a solid foundation for future experiments. Frontiers Media S.A. 2020-11-26 /pmc/articles/PMC7726199/ /pubmed/33324445 http://dx.doi.org/10.3389/fgene.2020.565085 Text en Copyright © 2020 Liu, Liu, Bai, Xiao and Dong. http://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
Liu, Ruili
Liu, Xianxun
Bai, Xuejin
Xiao, Chaozhu
Dong, Yajuan
Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title_full Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title_fullStr Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title_full_unstemmed Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title_short Identification and Characterization of circRNA in Longissimus Dorsi of Different Breeds of Cattle
title_sort identification and characterization of circrna in longissimus dorsi of different breeds of cattle
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7726199/
https://www.ncbi.nlm.nih.gov/pubmed/33324445
http://dx.doi.org/10.3389/fgene.2020.565085
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