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Nature communications2022; 13(1); 40; doi: 10.1038/s41467-021-27754-y

DNA methylation aging and transcriptomic studies in horses.

Abstract: Cytosine methylation patterns have not yet been thoroughly studied in horses. Here, we profile n = 333 samples from 42 horse tissue types at loci that are highly conserved between mammalian species using a custom array (HorvathMammalMethylChip40). Using the blood and liver tissues from horses, we develop five epigenetic aging clocks: a multi-tissue clock, a blood clock, a liver clock and two dual-species clocks that apply to both horses and humans. In addition, using blood methylation data from three additional equid species (plains zebra, Grevy's zebras and Somali asses), we develop another clock that applies across all equid species. Castration does not significantly impact the epigenetic aging rate of blood or liver samples from horses. Methylation and RNA data from the same tissues define the relationship between methylation and RNA expression across horse tissues. We expect that the multi-tissue atlas will become a valuable resource.
© 2022. The Author(s).
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Publication Date: 2022-01-10 PubMed ID: 35013267PubMed Central: PMC8748428DOI: 10.1038/s41467-021-27754-yGoogle Scholar: Lookup
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  • Journal Article
  • Meta-Analysis
  • Research Support
  • N.I.H.
  • Extramural
  • Research Support
  • Non-U.S. Gov't

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 investigates cytosine methylation patterns in horses with a focus on DNA methylation aging. The study produced five epigenetic aging clocks for various horse tissues and established that castration does not significantly impact the epigenetic aging rate. The research also explored the relationship between methylation and RNA expression within horse tissues.

Research Methodology

  • The researchers used a method of profiling called HorvathMammalMethylChip40 to study cytosine methylation patterns in samples from 42 horse tissue types.
  • The sample size used was 333 samples.
  • The team developed five epigenetic aging clocks. These were developed based on blood and liver tissues and ranged from a multi-tissue clock, a blood clock, a liver clock, and two dual-species clocks that apply to horses and humans.
  • The researchers also analyzed blood methylation data obtained from other equid species such as the plains zebra, Grevy’s zebras, and Somali asses forming an additional clock that applies to all equid species.

Findings of the Research

  • The study found that castration does not significantly impact the epigenetic aging rate of blood or liver samples in horses. This means that the process of castration does not alter the normal progression of epigenetic aging in these animals.
  • The research also highlighted the relationship between methylation and RNA expression in horse tissues. The methylation and RNA data gathered from the same tissues helped define this relationship.
  • Importantly, the research anticipates that the multi-tissue atlas developed from this study will turn into a valuable resource for further studies in this field of research.

Significance of the Research

  • This research is significant because it provides insights into the DNA methylation aging in horses, providing a tool for understanding and tracking the ageing process in these animals.
  • The development of the five epigenetic aging clocks in this study is also a significant contribution to the fields of genetics and veterinary science, potentially helping in diagnosing and treating age-related diseases in horses, and perhaps even other equid species.
  • The fact that the research was able to tie together methylation and RNA expression creates new ways of understanding genetic expressions and functionalities in relation to aging.

Cite This Article

APA
Horvath S, Haghani A, Peng S, Hales EN, Zoller JA, Raj K, Larison B, Robeck TR, Petersen JL, Bellone RR, Finno CJ. (2022). DNA methylation aging and transcriptomic studies in horses. Nat Commun, 13(1), 40. https://doi.org/10.1038/s41467-021-27754-y

Publication

Nature communications
ISSN: 2041-1723
NlmUniqueID: 101528555
Country: England
Language: English
Volume: 13
Issue: 1
Pages: 40
PII: 40

Researcher Affiliations

Horvath, Steve
  • Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA. shorvath@mednet.ucla.edu.
  • Department of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA. shorvath@mednet.ucla.edu.
Haghani, Amin
  • Department of Human Genetics, David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA, USA.
Peng, Sichong
  • Department of Population Health and Reproduction, University of California, Davis School of Veterinary Medicine, Davis, CA, USA.
Hales, Erin N
  • Department of Population Health and Reproduction, University of California, Davis School of Veterinary Medicine, Davis, CA, USA.
Zoller, Joseph A
  • Department of Biostatistics, Fielding School of Public Health, University of California, Los Angeles, Los Angeles, CA, USA.
Raj, Ken
  • Radiation Effects Department, Centre for Radiation, Chemical and Environmental Hazards, Public Health England, Chilton, Didcot, UK.
Larison, Brenda
  • Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA, USA.
  • Center for Tropical Research, Institute of the Environment and Sustainability, University of California, Los Angeles, CA, USA.
Robeck, Todd R
  • Zoological Operations, SeaWorld Parks and Entertainment, 7007 SeaWorld Drive, Orlando, FL, USA.
Petersen, Jessica L
  • Department of Animal Science, University of Nebraska, Lincoln, NE, USA.
Bellone, Rebecca R
  • Department of Population Health and Reproduction, University of California, Davis School of Veterinary Medicine, Davis, CA, USA.
  • Veterinary Genetics Laboratory, University of California, Davis School of Veterinary Medicine, Davis, CA, USA.
Finno, Carrie J
  • Department of Population Health and Reproduction, University of California, Davis School of Veterinary Medicine, Davis, CA, USA. cjfinno@ucdavis.edu.

MeSH Terms

  • Aging / genetics
  • Animals
  • Blood
  • DNA Methylation
  • Epigenesis, Genetic
  • Epigenomics
  • Equidae / genetics
  • Genetic Techniques
  • Horses / genetics
  • Humans
  • Liver
  • Transcriptome

Grant Funding

  • K01 OD015134 / NIH HHS
  • L40 TR001136 / NCATS NIH HHS

Conflict of Interest Statement

S.H. is a founder of the non-profit Epigenetic Clock Development Foundation, which plans to license several patents from his employer UC Regents. These patents list S.H. as an inventor. The other authors declare no competing interests.

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