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Home / Equine Research Bank / Funct Integr Genomics / Transcriptome and methylome sequencing reveals altered long ...
Functional & integrative genomics2023; 23(3); 268; doi: 10.1007/s10142-023-01200-2

Transcriptome and methylome sequencing reveals altered long non-coding RNA genes expression and their aberrant DNA methylation in equine sarcoids.

Abstract: Recent publications confirmed that long non-coding RNAs (lncRNAs) perform an essential function in gene-specific transcription regulation. Nevertheless, despite its important role, lncRNA has not yet been described in equine sarcoids, the skin neoplasia of horses. Therefore, the aim of this study is to deepen the knowledge about lncRNA expression in the pathogenesis of equine sarcoids and provide new insight into the regulatory function of lncRNA in the bovine papillomavirus-dependent neoplasia of horse dermal tissues. RNA sequencing (RNA-seq) data from 12 equine sarcoid samples and the corresponding controls were reanalyzed in this study. A total of 3396 differentially expressed (DE) lncRNAs and 128 DElncRNA-DE genes (DEGs) pairs were identified. Differentially expressed lncRNAs predicted target genes were enriched in pathways associated with inter alia the extracellular matrix disassembly and cancer pathways. Furthermore, methylation data from the same samples were integrated into the analysis, and 12 DElncRNAs were described as potentially disturbed by aberrant methylation. In conclusion, this study presents novel data about lncRNA's role in the pathogenesis of equine sarcoids.
© 2023. The Author(s).
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Publication Date: 2023-08-08 PubMed ID: 37552338PubMed Central: PMC10409845DOI: 10.1007/s10142-023-01200-2Google Scholar: Lookup
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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.

This research aimed to explore the role of long non-coding RNAs (lncRNAs) in equine sarcoids, a skin cancer in horses, and their potential irregularity due to abnormal DNA methylation.

Background and Purpose

  • Long non-coding RNAs (lncRNAs) are essential in gene-specific transcription regulation. Despite their importance, no studies have described their role in equine sarcoids, a form of skin cancer prevalent in horses.
  • This research was conducted to enhance understanding of the lncRNA expression’s impact on the development of equine sarcoids and give fresh insights into the regulatory function of lncRNA in the bovine papillomavirus-dependent cancer of horse dermal tissues.

Methodology

  • RNA sequencing data from 12 equine sarcoid samples and matching controls were reevaluated in this study.
  • Integration of methylation data from the same samples was also included in the study to identify potential disruption due to aberrant methylation.

Findings

  • The researchers identified a total of 3,396 differentially expressed (DE) lncRNAs and 128 DElncRNA-DE gene pairs (DEGs).
  • The target genes predicted from the differentially expressed lncRNAs were found to be enriched in pathways linked to extracellular matrix disassembly and cancer-related pathways.
  • Twelve DElncRNAs were flagged as potentially disrupted due to aberrant methylation.

Conclusion

  • The study sheds new light on the role of lncRNA in the development of equine sarcoids.
  • It also emphasizes the effect abnormal methylation can have on lncRNAs, suggesting a new avenue for further biological and genetic research in this area.

Cite This Article

APA
Semik-Gurgul E, Gurgul A, Szmatoła T. (2023). Transcriptome and methylome sequencing reveals altered long non-coding RNA genes expression and their aberrant DNA methylation in equine sarcoids. Funct Integr Genomics, 23(3), 268. https://doi.org/10.1007/s10142-023-01200-2

Publication

Functional & integrative genomics
ISSN: 1438-7948
NlmUniqueID: 100939343
Country: Germany
Language: English
Volume: 23
Issue: 3
Pages: 268
PII: 268

Researcher Affiliations

Semik-Gurgul, Ewelina
  • Department of Animal Molecular Biology, National Research Institute of Animal Production, Krakowska 1 St., 32-083, Krakow, Balice, Poland. ewelina.semik@izoo.krakow.pl.
Gurgul, Artur
  • Center for Experimental and Innovative Medicine, University of Agriculture in Krakow, Redzina 1c, 30-248, Krakow, Poland.
Szmatoła, Tomasz
  • Department of Animal Molecular Biology, National Research Institute of Animal Production, Krakowska 1 St., 32-083, Krakow, Balice, Poland.
  • Center for Experimental and Innovative Medicine, University of Agriculture in Krakow, Redzina 1c, 30-248, Krakow, Poland.

MeSH Terms

  • Horses / genetics
  • Animals
  • RNA, Long Noncoding / genetics
  • RNA, Long Noncoding / metabolism
  • Transcriptome
  • DNA Methylation
  • Epigenome
  • Skin Neoplasms / genetics
  • Skin Neoplasms / veterinary
  • Skin Neoplasms / metabolism

Conflict of Interest Statement

The authors declare no competing interests.

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