Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers

Ricardo De Paoli-Iseppi, Bruce E. Deagle, Andrea M. Polanowski, Clive R. McMahon, Joanne L. Dickinson, Mark A. Hindell, Simon N. Jarman

Research output: Contribution to journalArticle

2 Citations (Scopus)

Abstract

Age structure is a fundamental aspect of animal population biology. Age is strongly related to individual physiological condition, reproductive potential and mortality rate. Currently, there are no robust molecular methods for age estimation in birds. Instead, individuals must be ringed as chicks to establish known-age populations, which is a labour-intensive and expensive process. The estimation of chronological age using DNA methylation (DNAm) is emerging as a robust approach in mammals including humans, mice and some non-model species. Here, we quantified DNAm in whole blood samples from a total of 71 known-age Short-tailed shearwaters (Ardenna tenuirostris) using digital restriction enzyme analysis of methylation (DREAM). The DREAM method measures DNAm levels at thousands of CpG dinucleotides throughout the genome. We identified seven CpG sites with DNAm levels that correlated with age. A model based on these relationships estimated age with a mean difference of 2.8 years to known age, based on validation estimates from models created by repeated sampling of training and validation data subsets. Longitudinal observation of individuals re-sampled over 1 or 2 years generally showed an increase in estimated age (6/7 cases). For the first time, we have shown that epigenetic changes with age can be detected in a wild bird. This approach should be of broad interest to researchers studying age biomarkers in non-model species and will allow identification of markers that can be assessed using targeted techniques for accurate age estimation in large population studies.

Original languageEnglish
Pages (from-to)411-425
Number of pages15
JournalMolecular Ecology Resources
Volume19
Issue number2
DOIs
Publication statusPublished - 1 Mar 2019

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methylation
DNA methylation
DNA Methylation
seabird
seabirds
biomarker
biomarkers
Biomarkers
DNA
Restriction Mapping
Methylation
Birds
Population
Epigenomics
Mammals
restriction mapping
Research Personnel
Observation
Genome
Mortality

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De Paoli-Iseppi, R., Deagle, B. E., Polanowski, A. M., McMahon, C. R., Dickinson, J. L., Hindell, M. A., & Jarman, S. N. (2019). Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers. Molecular Ecology Resources, 19(2), 411-425. https://doi.org/10.1111/1755-0998.12981
De Paoli-Iseppi, Ricardo ; Deagle, Bruce E. ; Polanowski, Andrea M. ; McMahon, Clive R. ; Dickinson, Joanne L. ; Hindell, Mark A. ; Jarman, Simon N. / Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers. In: Molecular Ecology Resources. 2019 ; Vol. 19, No. 2. pp. 411-425.
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De Paoli-Iseppi, R, Deagle, BE, Polanowski, AM, McMahon, CR, Dickinson, JL, Hindell, MA & Jarman, SN 2019, 'Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers' Molecular Ecology Resources, vol. 19, no. 2, pp. 411-425. https://doi.org/10.1111/1755-0998.12981

Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers. / De Paoli-Iseppi, Ricardo; Deagle, Bruce E.; Polanowski, Andrea M.; McMahon, Clive R.; Dickinson, Joanne L.; Hindell, Mark A.; Jarman, Simon N.

In: Molecular Ecology Resources, Vol. 19, No. 2, 01.03.2019, p. 411-425.

Research output: Contribution to journalArticle

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AU - De Paoli-Iseppi, Ricardo

AU - Deagle, Bruce E.

AU - Polanowski, Andrea M.

AU - McMahon, Clive R.

AU - Dickinson, Joanne L.

AU - Hindell, Mark A.

AU - Jarman, Simon N.

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De Paoli-Iseppi R, Deagle BE, Polanowski AM, McMahon CR, Dickinson JL, Hindell MA et al. Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers. Molecular Ecology Resources. 2019 Mar 1;19(2):411-425. https://doi.org/10.1111/1755-0998.12981