Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins

The development of a precise blood or skin tissue DNA Epigenetic Aging Clock for Odontocete (OEAC) would solve current age estimation inaccuracies for wild odontocetes. Therefore, we determined genome-wide DNA methylation profiles using a custom array (HorvathMammalMethyl40) across skin and blood sa...

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Published in:Communications Biology
Main Authors: Robeck, Todd R., Fei, Zhe, Lu, Ake T., Haghani, Amin, Jourdain, Eve, Zoller, Joseph A., Li, Caesar Z., Steinman, Karen J., DiRocco, Stacy, Schmitt, Todd, Osborn, Steve, Van Bonn, Bill, Katsumata, Etsuko, Mergl, June, Almunia, Javier, Rodriguez, Magdalena, Haulena, Martin, Dold, Christopher, Horvath, Steve
Format: Text
Language:English
Published: Nature Publishing Group UK 2021
Subjects:
Article
toothed whales
Online Access:http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8167141/
http://www.ncbi.nlm.nih.gov/pubmed/34059764
https://doi.org/10.1038/s42003-021-02179-x
id ftpubmed:oai:pubmedcentral.nih.gov:8167141
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spelling ftpubmed:oai:pubmedcentral.nih.gov:8167141 2023-05-15T18:33:30+02:00 Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins Robeck, Todd R. Fei, Zhe Lu, Ake T. Haghani, Amin Jourdain, Eve Zoller, Joseph A. Li, Caesar Z. Steinman, Karen J. DiRocco, Stacy Schmitt, Todd Osborn, Steve Van Bonn, Bill Katsumata, Etsuko Mergl, June Almunia, Javier Rodriguez, Magdalena Haulena, Martin Dold, Christopher Horvath, Steve 2021-05-31 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8167141/ http://www.ncbi.nlm.nih.gov/pubmed/34059764 https://doi.org/10.1038/s42003-021-02179-x en eng Nature Publishing Group UK http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8167141/ http://www.ncbi.nlm.nih.gov/pubmed/34059764 http://dx.doi.org/10.1038/s42003-021-02179-x © The Author(s) 2021 https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . CC-BY Commun Biol Article Text 2021 ftpubmed https://doi.org/10.1038/s42003-021-02179-x 2021-06-13T00:28:40Z The development of a precise blood or skin tissue DNA Epigenetic Aging Clock for Odontocete (OEAC) would solve current age estimation inaccuracies for wild odontocetes. Therefore, we determined genome-wide DNA methylation profiles using a custom array (HorvathMammalMethyl40) across skin and blood samples (n = 446) from known age animals representing nine odontocete species within 4 phylogenetic families to identify age associated CG dinucleotides (CpGs). The top CpGs were used to create a cross-validated OEAC clock which was highly correlated for individuals (r = 0.94) and for unique species (median r = 0.93). Finally, we applied the OEAC for estimating the age and sex of 22 wild Norwegian killer whales. DNA methylation patterns of age associated CpGs are highly conserved across odontocetes. These similarities allowed us to develop an odontocete epigenetic aging clock (OEAC) which can be used for species conservation efforts by provide a mechanism for estimating the age of free ranging odontocetes from either blood or skin samples. Text toothed whales PubMed Central (PMC) Communications Biology 4 1
institution Open Polar
collection PubMed Central (PMC)
op_collection_id ftpubmed
language English
topic Article
spellingShingle Article
Robeck, Todd R.
Fei, Zhe
Lu, Ake T.
Haghani, Amin
Jourdain, Eve
Zoller, Joseph A.
Li, Caesar Z.
Steinman, Karen J.
DiRocco, Stacy
Schmitt, Todd
Osborn, Steve
Van Bonn, Bill
Katsumata, Etsuko
Mergl, June
Almunia, Javier
Rodriguez, Magdalena
Haulena, Martin
Dold, Christopher
Horvath, Steve
Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
topic_facet Article
description The development of a precise blood or skin tissue DNA Epigenetic Aging Clock for Odontocete (OEAC) would solve current age estimation inaccuracies for wild odontocetes. Therefore, we determined genome-wide DNA methylation profiles using a custom array (HorvathMammalMethyl40) across skin and blood samples (n = 446) from known age animals representing nine odontocete species within 4 phylogenetic families to identify age associated CG dinucleotides (CpGs). The top CpGs were used to create a cross-validated OEAC clock which was highly correlated for individuals (r = 0.94) and for unique species (median r = 0.93). Finally, we applied the OEAC for estimating the age and sex of 22 wild Norwegian killer whales. DNA methylation patterns of age associated CpGs are highly conserved across odontocetes. These similarities allowed us to develop an odontocete epigenetic aging clock (OEAC) which can be used for species conservation efforts by provide a mechanism for estimating the age of free ranging odontocetes from either blood or skin samples.
format Text
author Robeck, Todd R.
Fei, Zhe
Lu, Ake T.
Haghani, Amin
Jourdain, Eve
Zoller, Joseph A.
Li, Caesar Z.
Steinman, Karen J.
DiRocco, Stacy
Schmitt, Todd
Osborn, Steve
Van Bonn, Bill
Katsumata, Etsuko
Mergl, June
Almunia, Javier
Rodriguez, Magdalena
Haulena, Martin
Dold, Christopher
Horvath, Steve
author_facet Robeck, Todd R.
Fei, Zhe
Lu, Ake T.
Haghani, Amin
Jourdain, Eve
Zoller, Joseph A.
Li, Caesar Z.
Steinman, Karen J.
DiRocco, Stacy
Schmitt, Todd
Osborn, Steve
Van Bonn, Bill
Katsumata, Etsuko
Mergl, June
Almunia, Javier
Rodriguez, Magdalena
Haulena, Martin
Dold, Christopher
Horvath, Steve
author_sort Robeck, Todd R.
title Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
title_short Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
title_full Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
title_fullStr Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
title_full_unstemmed Multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
title_sort multi-species and multi-tissue methylation clocks for age estimation in toothed whales and dolphins
publisher Nature Publishing Group UK
publishDate 2021
url http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8167141/
http://www.ncbi.nlm.nih.gov/pubmed/34059764
https://doi.org/10.1038/s42003-021-02179-x
genre toothed whales
genre_facet toothed whales
op_source Commun Biol
op_relation http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8167141/
http://www.ncbi.nlm.nih.gov/pubmed/34059764
http://dx.doi.org/10.1038/s42003-021-02179-x
op_rights © The Author(s) 2021
https://creativecommons.org/licenses/by/4.0/Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
op_rightsnorm CC-BY
op_doi https://doi.org/10.1038/s42003-021-02179-x
container_title Communications Biology
container_volume 4
container_issue 1
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