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Morphological changes and functional circRNAs screening of rabbit skeletal muscle development
BACKGROUND: The temporal expression pattern of circular RNAs (circRNAs) across developmental stages is essential for skeletal muscle growth and functional analysis. However, there are few analyses on the potential functions of circRNAs in rabbit skeletal muscle development. RESULTS: Initially, the p...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223307/ https://www.ncbi.nlm.nih.gov/pubmed/34167469 http://dx.doi.org/10.1186/s12864-021-07706-y |
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author | Zheng, Qi Zhu, Cuiyun Jing, Jing Ling, Yinghui Qin, Shuaiqi Wang, Jiao Zha, Lisha Liu, Ya Fang, Fugui |
author_facet | Zheng, Qi Zhu, Cuiyun Jing, Jing Ling, Yinghui Qin, Shuaiqi Wang, Jiao Zha, Lisha Liu, Ya Fang, Fugui |
author_sort | Zheng, Qi |
collection | PubMed |
description | BACKGROUND: The temporal expression pattern of circular RNAs (circRNAs) across developmental stages is essential for skeletal muscle growth and functional analysis. However, there are few analyses on the potential functions of circRNAs in rabbit skeletal muscle development. RESULTS: Initially, the paraffin sections showed extremely significant differences in the diameter, number, area and density of skeletal muscle fibers of the fetus, child, adult rabbit hind legs (P < 0.01). Then, RNA-seq libraries of these three stages were constructed. A total of 481 differentially expressed circRNAs (DE-circRNAs) and 5,658 differentially expressed genes (DEGs) were identified. Subsequently, DE-circRNAs, whose host genes were DEGs or non-DEGs, were analyzed by GO respectively. In the fetus vs. child group, up-regulated DE-circRNAs (whose host genes were DEGs) were related to muscle fiber structure, and down-regulated ones were related to mitosis. The up-regulated DE-circRNAs (whose host genes were non-DEGs) were involved in enzyme activity, methylation and glycosylation, and the down-regulated ones were involved in mitosis and catabolism. In the fetus vs. adult group, the up-regulated DE-circRNAs (whose host genes were DEGs) were related to skeletal muscle basic structure, and the down-regulated ones were also associated with cell proliferation. But the up-regulated DE-circRNAs (whose host genes were non-DEGs) were connected with regulation of histone ubiquitination, chromatin and organelles. The down-regulated DE-circRNAs were connected with the catabolism processes. In addition, novel_circ_0022663 and novel_circ_0005489, which might have coding potential, and novel_circ_0004210 and novel_circ_0001669, which might have miRNA sponge capability, were screened out. CONCLUSIONS: In this study, hind leg muscles of fetus, child and adult rabbits were collected for paraffin section and RNA-seq to observe the structural changes of skeletal muscle and obtain circRNA expression profiles at different stages. These data provided a catalog of circRNAs related to muscle development in New Zealand rabbits, allowing us to better understand the functional transitions in mammalian muscle development. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-021-07706-y. |
format | Online Article Text |
id | pubmed-8223307 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-82233072021-06-24 Morphological changes and functional circRNAs screening of rabbit skeletal muscle development Zheng, Qi Zhu, Cuiyun Jing, Jing Ling, Yinghui Qin, Shuaiqi Wang, Jiao Zha, Lisha Liu, Ya Fang, Fugui BMC Genomics Research BACKGROUND: The temporal expression pattern of circular RNAs (circRNAs) across developmental stages is essential for skeletal muscle growth and functional analysis. However, there are few analyses on the potential functions of circRNAs in rabbit skeletal muscle development. RESULTS: Initially, the paraffin sections showed extremely significant differences in the diameter, number, area and density of skeletal muscle fibers of the fetus, child, adult rabbit hind legs (P < 0.01). Then, RNA-seq libraries of these three stages were constructed. A total of 481 differentially expressed circRNAs (DE-circRNAs) and 5,658 differentially expressed genes (DEGs) were identified. Subsequently, DE-circRNAs, whose host genes were DEGs or non-DEGs, were analyzed by GO respectively. In the fetus vs. child group, up-regulated DE-circRNAs (whose host genes were DEGs) were related to muscle fiber structure, and down-regulated ones were related to mitosis. The up-regulated DE-circRNAs (whose host genes were non-DEGs) were involved in enzyme activity, methylation and glycosylation, and the down-regulated ones were involved in mitosis and catabolism. In the fetus vs. adult group, the up-regulated DE-circRNAs (whose host genes were DEGs) were related to skeletal muscle basic structure, and the down-regulated ones were also associated with cell proliferation. But the up-regulated DE-circRNAs (whose host genes were non-DEGs) were connected with regulation of histone ubiquitination, chromatin and organelles. The down-regulated DE-circRNAs were connected with the catabolism processes. In addition, novel_circ_0022663 and novel_circ_0005489, which might have coding potential, and novel_circ_0004210 and novel_circ_0001669, which might have miRNA sponge capability, were screened out. CONCLUSIONS: In this study, hind leg muscles of fetus, child and adult rabbits were collected for paraffin section and RNA-seq to observe the structural changes of skeletal muscle and obtain circRNA expression profiles at different stages. These data provided a catalog of circRNAs related to muscle development in New Zealand rabbits, allowing us to better understand the functional transitions in mammalian muscle development. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-021-07706-y. BioMed Central 2021-06-24 /pmc/articles/PMC8223307/ /pubmed/34167469 http://dx.doi.org/10.1186/s12864-021-07706-y Text en © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data. |
spellingShingle | Research Zheng, Qi Zhu, Cuiyun Jing, Jing Ling, Yinghui Qin, Shuaiqi Wang, Jiao Zha, Lisha Liu, Ya Fang, Fugui Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title | Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title_full | Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title_fullStr | Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title_full_unstemmed | Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title_short | Morphological changes and functional circRNAs screening of rabbit skeletal muscle development |
title_sort | morphological changes and functional circrnas screening of rabbit skeletal muscle development |
topic | Research |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8223307/ https://www.ncbi.nlm.nih.gov/pubmed/34167469 http://dx.doi.org/10.1186/s12864-021-07706-y |
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