Special Issue "Omics Approaches to Understanding Skeletal Muscle Biology"

A special issue of Biomolecules (ISSN 2218-273X). This special issue belongs to the section "Bioinformatics and Systems Biology".

Deadline for manuscript submissions: 20 June 2022 | Viewed by 1727

Special Issue Editors

Prof. Dr. Zhonglin Tang
E-Mail Website
Guest Editor
Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen 518124, China
Interests: Skeletal muscle; Myogenesis; Gene Expression; Non-coding RNAs; Regulation Network; Epigenetics; Functional genomics; Multi-omics
Prof. Dr. Qinghua Nie
E-Mail Website
Guest Editor
College of Animal Science, South China Agricultural University, Guangzhou 510642, China
Interests: livestock genetics and breeding; animal genetics and genomics; epigenetics; ncRNA; chicken

Special Issue Information

Dear Colleagues,

Skeletal muscle is the most abundant tissue, accounting for 30–40% of body mass in adult humans and 35–60% of that in domesticated animals. It is well known that skeletal muscle development is an extremely complex regulatory process orchestrated by myogenic genes, transcription factors, and noncoding RNAs. However, the regulatory mechanisms of skeletal muscle biology at different levels, such as histone modification, RNA editing, splicing, and RNA methylation, still need to be explored. In past decades, we have witnessed the rapid development of high-throughput multi-omics technologies, which provides a powerful tool for understanding skeletal muscle biology. This Special Issue aims to integrate multi-omics data, such as genomics, transcriptomics, proteomics, and metabolomics, to construct interaction networks and deeply explore the regulatory mechanism of skeletal muscle development, regeneration, aging, diseases and other related areas. We welcome both experimental and bioinformatics studies proving mechanistic insights into skeletal muscle biology. Both original research and review papers are welcome.

Prof. Dr. Zhonglin Tang
Prof. Dr. Qinghua Nie
Guest Editors

Manuscript Submission Information

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Keywords

  • Skeletal muscle
  • Myogenesis
  • Regulation network
  • Gene expression
  • Functional genomics

Published Papers (2 papers)

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Research

Article
miR-27b-3p Attenuates Muscle Atrophy by Targeting Cbl-b in Skeletal Muscles
Biomolecules 2022, 12(2), 191; https://doi.org/10.3390/biom12020191 - 23 Jan 2022
Cited by 1 | Viewed by 858
Abstract
As it is well known, muscle atrophy is a process in which protein degradation increases and protein synthesis decreases. This process is regulated by a variety of links. Among them, microRNAs play an essential role in this process, which has attracted widespread attention. [...] Read more.
As it is well known, muscle atrophy is a process in which protein degradation increases and protein synthesis decreases. This process is regulated by a variety of links. Among them, microRNAs play an essential role in this process, which has attracted widespread attention. In this paper, we find that miR-27b-3p and Cbl-b genes are significantly differentially expressed in the induced atrophy model. The dual-luciferase experiment and Western blot analysis confirmed that miR-27b-3p could regulate the expression of Cbl-b. In C2C12-differentiated myotubes, the overexpression of the Cbl-b gene showed that Cbl-b could upregulate the expression of MuRF-1 and Atrogin-1, which are related marker genes of muscle atrophy, at both the mRNA and protein levels, indicating that the Cbl-b gene can specifically affect muscle atrophy. The knockdown of the Cbl-b gene after C2C12-differentiated myotubes induced atrophy treatment can downregulate the expression of muscle-atrophy-related genes, indicating that manual intervention to downregulate the expression of Cbl-b has a certain alleviating effect on muscle atrophy. These data suggest that miR-27b-3p can regulate the expression of the Cbl-b gene and then exert a particular influence on muscle atrophy through the Cbl-b gene. Full article
(This article belongs to the Special Issue Omics Approaches to Understanding Skeletal Muscle Biology)
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Article
Characterization of Alternative Splicing Events in Porcine Skeletal Muscles with Different Intramuscular Fat Contents
Biomolecules 2022, 12(2), 154; https://doi.org/10.3390/biom12020154 - 18 Jan 2022
Cited by 1 | Viewed by 440
Abstract
Meat quality is one of the most important economic traits in pig breeding and production. Intramuscular fat (IMF) is a major factor that improves meat quality. To better understand the alternative splicing (AS) events underlying meat quality, long-read isoform sequencing (Iso-seq) was used [...] Read more.
Meat quality is one of the most important economic traits in pig breeding and production. Intramuscular fat (IMF) is a major factor that improves meat quality. To better understand the alternative splicing (AS) events underlying meat quality, long-read isoform sequencing (Iso-seq) was used to identify differential (D)AS events between the longissimus thoracis (LT) and semitendinosus (ST), which differ in IMF content, together with short-read RNA-seq. Through Iso-seq analysis, we identified a total of 56,789 novel transcripts covering protein-coding genes, lncRNA, and fusion transcripts that were not previously annotated in pigs. We also identified 456,965 AS events, among which 3930 were DAS events, corresponding to 2364 unique genes. Through integrative analysis of Iso-seq and RNA-seq, we identified 1174 differentially expressed genes (DEGs), among which 122 were DAS genes, i.e., DE-DAS genes. There are 12 overlapped pathways between the top 20 DEGs and DE-DAS genes, as revealed by KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis, indicating that DE-DAS genes play important roles in the differential phenotype of LT and ST. Further analysis showed that upregulated DE-DAS genes are more important than downregulated ones in IMF deposition. Fatty acid degradation and the PPAR (peroxisome proliferator-activated receptor) signaling pathway were found to be the most important pathways regulating the differential fat deposition of the two muscles. The results update the existing porcine genome annotations and provide data for the in-depth exploration of the mechanisms underlying meat quality and IMF deposition. Full article
(This article belongs to the Special Issue Omics Approaches to Understanding Skeletal Muscle Biology)
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