The effects of age, sex, weight, and breed on canid methylomes.

TitleThe effects of age, sex, weight, and breed on canid methylomes.
Publication TypeJournal Article
Year of Publication2022
AuthorsRubbi, L, Zhang, H, Feng, J, He, C, Kurnia, P, Ratan, P, Tammana, A, House, S, Thompson, M, Farrell, C, Snir, S, Stahler, D, Ostrander, EA, vonHoldt, BM, Pellegrini, M
JournalEpigenetics
Volume17
Issue11
Pagination1497-1512
Date Published2022 Nov
ISSN1559-2308
KeywordsAnimals, DNA Methylation, Dogs, Epigenesis, Genetic, Epigenome, Epigenomics, Genotype, Longevity
Abstract

<p>Unlike genomes, which are static throughout the lifespan of an organism, DNA methylomes are dynamic. To study these dynamics, we developed quantitative models that measure the effect of multiple factors on DNA methylomes including, age, sex, weight, and genetics. We conducted our study in canids, which prove to be an ideal species to assess epigenetic moderators due to their extreme variability in size and well-characterized genetic structure. We collected buccal swabs from 217 canids (207 domestic dogs and 10 grey wolves) and used targeted bisulphite sequencing to measure methylomes. We also measured genotypes at over one thousand single nucleotide polymorphisms (SNPs). As expected, we found that DNA methylomes are strongly associated with age, enabling the construction of epigenetic clocks. However, we also identify novel associations between methylomes and sex, weight, and sterilization status, leading to accurate models that predict these factors. Methylomes are also affected by genetics, and we observe multiple associations between SNP loci and methylated CpGs. Finally, we show that several factors moderate the relationship between epigenetic ages and real ages, such as body weight, which increases epigenetic ageing. In conclusion, we demonstrate that the plasticity of DNA methylomes is impacted by myriad genetics and physiological factors, and that DNA methylation biomarkers are accurate predictors of age, sex and sterilization status.</p>

DOI10.1080/15592294.2022.2069385
Alternate JournalEpigenetics
PubMed ID35502722
PubMed Central IDPMC9586589