Analysis of DNA methylation of potential age-related methylation sites in canine peripheral blood leukocytes

Ito, Genta; Yoshimura, Kuniko; Momoi, Yasuyuki

doi:10.1292/jvms.16-0341

Cited by 14 publications

(27 citation statements)

References 29 publications

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“…However, there have been only a few reports on age prediction using DNA methylation in animals outside of humans (e.g. dogs 16 , 21 , wolf 21 , humpback whales 17 , and chimpanzees 20 ) to date.…”

Section: Discussionmentioning

confidence: 99%

“…CpG islands), where DNA methylation of a gene’s promoter can repress gene expression 15 . Many studies have reported correlations between DNA methylation at CpG islands and age 16 – 19 . There are two types of age-related DNA methylation: epigenetic drift and epigenetic clock 15 , 20 , 21 .…”

Section: Introductionmentioning

confidence: 99%

“…While epigenetic drift has an inconsistent relationship with age across individuals, epigenetic clock is consistent with age across individuals 15 , 21 . Therefore, epigenetic clock type is more useful when estimating age and has previously been used to estimate age in humans and other animals 16 – 19 , 21 .…”

Section: Introductionmentioning

confidence: 99%

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Estimation of chimpanzee age based on DNA methylation

Itô

Udono

Hirata

et al. 2018

Sci Rep

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In wild animal conservation, knowing the age of an individual animal is extremely beneficial. However, estimating the age is difficult for many species. Recently, epigenetics-based methods of estimating age have been reported. These studies were predominantly on humans with few reports on other animals, especially wild animals. In the present study, a chimpanzee (Pan troglodytes) age prediction model was developed based on the ELOVL2, CCDC102B, and ZNF423 genes that may also have application in human age prediction. Pyrosequencing was used to measure methylation in 20 chimpanzee blood samples and correlation between age and methylation status was calculated. Age and methylation of sites in ELOVL2 and CCDC102B were significantly correlated and an age prediction model was created using these genes. In the regression equation using only ELOVL2, the highest correlation coefficient was 0.741, with a mean absolute deviation (MAD) of 5.41, compared with the combination of ELOVL2 and CCDC102B, where the highest correlation coefficient was 0.742 and the MAD was 5.41. Although larger MADs were observed in chimpanzees than in humans based on these genes, the results indicate the feasibility of estimating chimpanzee age using DNA methylation, and can have implications in understanding the ecology of chimpanzees and chimpanzee conservation.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Estimation of chimpanzee age based on DNA methylation

Itô

Udono

Hirata

et al. 2018

Sci Rep

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“…Clock-type DNAm age biomarkers based on multiple CpG sites have been developed for dogs. These models were calibrated using blood from multiple known-age animals and could predict age with a minimum MAD of 23.1 months (Ito et al, 2017 ).…”

Section: Quantifying Dna Methylation Environmental Effects and Age Imentioning

confidence: 99%

Measuring Animal Age with DNA Methylation: From Humans to Wild Animals

et al. 2017

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DNA methylation (DNAm) is a key mechanism for regulating gene expression in animals and levels are known to change with age. Recent studies have used DNAm changes as a biomarker to estimate chronological age in humans and these techniques are now also being applied to domestic and wild animals. Animal age is widely used to track ongoing changes in ecosystems, however chronological age information is often unavailable for wild animals. An ability to estimate age would lead to improved monitoring of (i) population trends and status and (ii) demographic properties such as age structure and reproductive performance. Recent studies have revealed new examples of DNAm age association in several new species increasing the potential for developing DNAm age biomarkers for a broad range of wild animals. Emerging technologies for measuring DNAm will also enhance our ability to study age-related DNAm changes and to develop new molecular age biomarkers.

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“…In humans, clocks have been designed using varying numbers of CpG sites, from one site (e.g., an age predictor based on a CpG in the ELOVL2 gene; Garagnani et al, 2012) to several hundred sites (e.g., 353 sites; Horvath, 2013). Epigenetic clocks have also been developed for other species including the mouse (Stubbs et al, 2017;Petkovich et al, 2017;Thompson et al, 2018;Meer et al, 2018), chimpanzee (Ito et al, 2018), bat (Wright et al, 2018), canid (Ito et al, 2017;Thompson et al, 2017), humpback whale (Polanowski et al, 2014), minke whale (Tanabe et al, 2020), and bottlenose dolphin (Beal et al, 2019). Accurate age estimates can be valuable for conservation efforts and species management.…”

Section: Introductionmentioning

confidence: 99%

An epigenetic clock to estimate the age of living beluga whales

Bors

Baker

Wade

et al. 2020

Preprint

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IntroductionDNA methylation data facilitate the development of accurate molecular estimators of chronological age, or ‘epigenetic clocks.’ We present a robust epigenetic clock for the beluga whale, Delphinapterus leucas, developed for an endangered population in Cook Inlet, Alaska, USA.Methods and ResultsWe used a custom methylation array to measure methylation levels at 37,491 cytosine-guanine sites (CpGs) from skin samples of dead whales (n = 67) whose chronological ages were estimated based on tooth growth layer groups. Using these calibration data, a penalized regression model selected 23 CpGs, providing an R2 = 0.92 for the training data; and an R2 = 0.74 and median absolute age error = 2.9 years for the leave one out cross-validation. We applied the epigenetic clock to an independent data set of 38 skin samples collected with a biopsy dart from living whales between 2016 and 2018. Age estimates ranged from 11 to 27 years. We also report sex correlations in CpG data and describe an approach of identifying the sex of an animal using DNA methylation.DiscussionThe epigenetic estimators of age and sex presented here have broad applications for conservation and management of Cook Inlet beluga whales and potentially other cetaceans.

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Analysis of DNA methylation of potential age-related methylation sites in canine peripheral blood leukocytes

Cited by 14 publications

References 29 publications

Estimation of chimpanzee age based on DNA methylation

Estimation of chimpanzee age based on DNA methylation

Measuring Animal Age with DNA Methylation: From Humans to Wild Animals

An epigenetic clock to estimate the age of living beluga whales

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