TY - JOUR
T1 - Pan-primate studies of age and sex
AU - Horvath, Steve
AU - Haghani, Amin
AU - Zoller, Joseph A.
AU - Lu, Ake T.
AU - Ernst, Jason
AU - Pellegrini, Matteo
AU - Jasinska, Anna J.
AU - Mattison, Julie A.
AU - Salmon, Adam B.
AU - Raj, Ken
AU - Horvath, Markus
AU - Paul, Kimberly C.
AU - Ritz, Beate R.
AU - Robeck, Todd R.
AU - Spriggs, Maria
AU - Ehmke, Erin E.
AU - Jenkins, Susan
AU - Li, Cun
AU - Nathanielsz, Peter W.
N1 - Funding Information:
This is Duke Lemur Center publication #1497. The vervet animal and tissue resources used here were supported by the following grants from the US National Institutes of Health: P40RR019963/ OD010965 (to M. J. Jorgensen); R01RR016300/OD010980 (to Nelson B.Freimer); R37MH060233 (to D. Geschwind). Marmoset resources were supported by funding from the National Institutes of Health through grants R01 AG050797, P30 AG013319, and P30 AG044271.
Funding Information:
This work was mainly supported by the Paul G. Allen Frontiers Group (SH), 1U01AG060908-01 (SH), and Open Philanthropy (SH). We would like to acknowledge support through a 1U19AG057758-01A1 Womb to Tomb: Developmental programming and aging interactions in primates to PWN. This investigation used resources that were supported by the Southwest National Primate Research Center grant P51 OD011133 from the Office of Research Infrastructure Programs, National Institutes of Health.
Funding Information:
The rhesus macaque data were funded in part by the Intramural Research Program, National Institute on Aging, NIH. Blood samples from several primates were graciously provided by Busch Gardens Tampa.
Funding Information:
The Framingham Heart Study is funded by National Institutes of Health contract N01-HC-25195 and HHSN268201500001I. The laboratory work for this investigation was funded by the Division of Intramural Research, National Heart, Lung, and Blood Institute, National Institutes of Health. The analytical component of this project was funded by the Division of Intramural Research, National Heart, Lung, and Blood Institute, and the Center for Information Technology, National Institutes of Health, Bethesda, MD. JMM and KLL were supported by R01AG029451.
Funding Information:
The Jackson Heart Study (JHS) is supported by contracts HHSN268201300046C, HHSN268201300047C, HHSN268201300048C, HHSN268201300049C, HHSN268201300050C from the National Heart, Lung, and Blood Institute and the National Institute on Minority Health and Health Disparities.
Publisher Copyright:
© 2023, The Author(s).
PY - 2023
Y1 - 2023
N2 - Age and sex have a profound effect on cytosine methylation levels in humans and many other species. Here we analyzed DNA methylation profiles of 2400 tissues derived from 37 primate species including 11 haplorhine species (baboons, marmosets, vervets, rhesus macaque, chimpanzees, gorillas, orangutan, humans) and 26 strepsirrhine species (suborders Lemuriformes and Lorisiformes). From these we present here, pan-primate epigenetic clocks which are highly accurate for all primates including humans (age correlation R = 0.98). We also carried out in-depth analysis of baboon DNA methylation profiles and generated five epigenetic clocks for baboons (Olive-yellow baboon hybrid), one of which, the pan-tissue epigenetic clock, was trained on seven tissue types (fetal cerebral cortex, adult cerebral cortex, cerebellum, adipose, heart, liver, and skeletal muscle) with ages ranging from late fetal life to 22.8 years of age. Using the primate data, we characterize the effect of age and sex on individual cytosines in highly conserved regions. We identify 11 sex-related CpGs on autosomes near genes (POU3F2, CDYL, MYCL, FBXL4, ZC3H10, ZXDC, RRAS, FAM217A, RBM39, GRIA2, UHRF2). Low overlap can be observed between age- and sex-related CpGs. Overall, this study advances our understanding of conserved age- and sex-related epigenetic changes in primates, and provides biomarkers of aging for all primates.
AB - Age and sex have a profound effect on cytosine methylation levels in humans and many other species. Here we analyzed DNA methylation profiles of 2400 tissues derived from 37 primate species including 11 haplorhine species (baboons, marmosets, vervets, rhesus macaque, chimpanzees, gorillas, orangutan, humans) and 26 strepsirrhine species (suborders Lemuriformes and Lorisiformes). From these we present here, pan-primate epigenetic clocks which are highly accurate for all primates including humans (age correlation R = 0.98). We also carried out in-depth analysis of baboon DNA methylation profiles and generated five epigenetic clocks for baboons (Olive-yellow baboon hybrid), one of which, the pan-tissue epigenetic clock, was trained on seven tissue types (fetal cerebral cortex, adult cerebral cortex, cerebellum, adipose, heart, liver, and skeletal muscle) with ages ranging from late fetal life to 22.8 years of age. Using the primate data, we characterize the effect of age and sex on individual cytosines in highly conserved regions. We identify 11 sex-related CpGs on autosomes near genes (POU3F2, CDYL, MYCL, FBXL4, ZC3H10, ZXDC, RRAS, FAM217A, RBM39, GRIA2, UHRF2). Low overlap can be observed between age- and sex-related CpGs. Overall, this study advances our understanding of conserved age- and sex-related epigenetic changes in primates, and provides biomarkers of aging for all primates.
KW - Baboon
KW - Development
KW - DNA methylation
KW - Epigenetic clock
KW - Lemur
KW - Primate
KW - Strepsirrhine
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U2 - 10.1007/s11357-023-00878-3
DO - 10.1007/s11357-023-00878-3
M3 - Article
C2 - 37493860
AN - SCOPUS:85165723449
SN - 2509-2715
VL - 45
SP - 3187
EP - 3209
JO - GeroScience
JF - GeroScience
IS - 6
ER -