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Home / Equine Research Bank / Int J Mol Sci / Comparative Genomics Identifies the Evolutionarily Conserved...
International journal of molecular sciences2023; 24(20); 15440; doi: 10.3390/ijms242015440

Comparative Genomics Identifies the Evolutionarily Conserved Gene TPM3 as a Target of eca-miR-1 Involved in the Skeletal Muscle Development of Donkeys.

Abstract: Species within the genus are valued for their draft ability. Skeletal muscle forms the foundation of the draft ability of species; however, skeletal muscle development-related conserved genes and their target miRNAs are rarely reported for . In this study, a comparative genomics analysis was performed among five species (horse, donkey, zebra, cattle, and goat), and the results showed that a total of 15,262 (47.43%) genes formed the core gene set of the five species. Only nine chromosomes (Chr01, Chr02, Chr03, Chr06, Chr10, Chr18, Chr22, Chr27, Chr29, and Chr30) exhibited a good collinearity relationship among species. The micro-synteny analysis results showed that was evolutionarily conserved in chromosome 1 in . Furthermore, donkeys were used as the model species for to investigate the genetic role of in muscle development. Interestingly, the results of comparative transcriptomics showed that the gene was differentially expressed in donkey skeletal muscle S1 (2 months old) and S2 (24 months old), as verified via RT-PCR. Dual-luciferase test analysis showed that the gene was targeted by differentially expressed miRNA (eca-miR-1). Furthermore, a total of 17 gene family members were identified in the whole genome of donkey, and a heatmap analysis showed that was a key member of the gene family, which is involved in skeletal muscle development. In conclusion, the gene was conserved in , and was targeted by eca-miR-1, which is involved in skeletal muscle development in donkeys.
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Publication Date: 2023-10-22 PubMed ID: 37895119PubMed Central: PMC10607226DOI: 10.3390/ijms242015440Google Scholar: Lookup
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  • Comparative Study
  • Journal Article

Summary

This research summary has been generated with artificial intelligence and may contain errors and omissions. Refer to the original study to confirm details provided. Submit correction.

The research article is about how a certain gene, TPM3, is targeted and influenced by a specific miRNA (a type of gene regulator) to contribute to muscle development in donkeys.

Objective and Methodology

  • The major objective of the research was to identify the conserved genes and their target miRNAs involved in the development of skeletal muscle in donkeys.
  • In order to achieve this, the researchers carried out a comparative genomics analysis, comparing the genomes and genes of five species – horse, donkey, zebra, cattle, and goat.

Findings

  • Results revealed that 47.43% of all genes (15,262 genes) were common or ‘core’ across these five species
  • A further drill-down unveiled that nine specific chromosomes showed a good collinearity, or sequential arrangement of genes, amongst the species.
  • The TPM3 (Tropomyosin 3) gene was found to be conserved across these species, specifically on chromosome 1.

Role of TPM3 in Muscle Development

  • Using donkeys as the model species, the researchers then studied how the conserved TPM3 gene contributed to muscle development. It exhibited differential expression in donkey’s skeletal muscles at two different stages of life–2 months old and 24 months old, indicating its significant role at different development phases.
  • This finding was validated through RT-PCR, a molecular technique used to amplify and quantify targeted DNA molecules.

Connection with miRNA (eca-miR-1)

  • Further exploration revealed that a specific type of miRNA named eca-miR-1, a gene regulator, targeted the TPM3 gene, further reinforcing its role in muscle development.
  • Out of 17 TPM3 gene family members identified in the donkey genome, TPM3 stood out as a critical player in skeletal muscle growth. A heatmap analysis reinforced this finding.

Conclusion

  • In conclusion, the TPM3 gene, targeted by the eca-miR-1 miRNA, plays a crucial role in the development of skeletal muscle in donkeys, and is evolutionarily conserved across related species.

Cite This Article

APA
Yang G, Sun M, Wang Z, Hu Q, Guo J, Yu J, Lei C, Dang R. (2023). Comparative Genomics Identifies the Evolutionarily Conserved Gene TPM3 as a Target of eca-miR-1 Involved in the Skeletal Muscle Development of Donkeys. Int J Mol Sci, 24(20), 15440. https://doi.org/10.3390/ijms242015440

Publication

International journal of molecular sciences
ISSN: 1422-0067
NlmUniqueID: 101092791
Country: Switzerland
Language: English
Volume: 24
Issue: 20
PII: 15440

Researcher Affiliations

Yang, Ge
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Sun, Minhao
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Wang, Zhaofei
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Hu, Qiaoyan
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Guo, Jiajun
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Yu, Jie
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Lei, Chuzhao
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.
Dang, Ruihua
  • Key Laboratory of Animal Genetics, Breeding and Reproduction of Shaanxi Province, College of Animal Science and Technology, Northwest A&F University, Yangling, Xianyang 712100, China.

MeSH Terms

  • Animals
  • Cattle
  • Equidae / genetics
  • Genome
  • Genomics
  • Horses / genetics
  • MicroRNAs / genetics
  • Muscle Development / genetics
  • Muscle, Skeletal

Grant Funding

  • K3030922098 / the Central Guidance on Local Science and Technology Development Fund
  • 20191001 / Dong-E-E-Jiao Co. Ltd

Conflict of Interest Statement

The authors declare no conflict of interest.

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