Cytosine modifications exhibit circadian oscillations that are involved in epigenetic diversity and aging

被引：45

作者：

Oh, Gabriel ^{[1
]}

Ebrahimi, Sasha ^{[1
]}

Carlucci, Matthew ^{[1
]}

Zhang, Aiping ^{[1
]}

Nair, Akhil ^{[1
]}

Groot, Daniel E. ^{[1
]}

Labrie, Viviane ^{[1
,2
]}

Jia, Peixin ^{[1
]}

Oh, Edward S. ^{[1
]}

Jeremian, Richie H. ^{[1
]}

Susic, Miki ^{[1
]}

Shrestha, Tenjin C. ^{[3
,4
]}

Ralph, Martin R. ^{[4
]}

Gordevicius, Juozas ^{[5
,6
]}

Koncevicius, Karolis ^{[5
,6
]}

Petronis, Art ^{[1
,5
]}

机构：

[1] Ctr Addict & Mental Hlth, Campbell Family Mental Hlth Res Inst, Krembil Family Epigenet Lab, Toronto, ON M5T 1R8, Canada

[2] Van Andel Res Inst, Ctr Neurodegenerat Sci, Grand Rapids, MI 49503 USA

[3] Univ Toronto, Dept Cell & Syst Biol, Toronto, ON M5S 3G5, Canada

[4] Univ Toronto, Dept Psychol, Toronto, ON M5S 3G5, Canada

[5] Vilnius Univ, Life Sci Ctr, Inst Biotechnol, Vilnius, Lithuania

[6] Vilnius Univ, Inst Data Sci & Digital Technol, LT-08663 Vilnius, Lithuania

来源：

NATURE COMMUNICATIONS | 2018年 / 9卷

关键词：

DNA METHYLATION; GENE-EXPRESSION; C-MYC; DISEASE; CLOCK; MAMMALS; PROTEIN; 5-HYDROXYMETHYLCYTOSINE; 5-METHYLCYTOSINE; TRANSCRIPTION;

D O I：

10.1038/s41467-018-03073-7

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Circadian rhythmicity governs a remarkable array of fundamental biological functions and is mediated by cyclical transcriptomic and proteomic activities. Epigenetic factors are also involved in this circadian machinery; however, despite extensive efforts, detection and characterization of circadian cytosine modifications at the nucleotide level have remained elusive. In this study, we report that a large proportion of epigenetically variable cytosines show a circadian pattern in their modification status in mice. Importantly, the cytosines with circadian epigenetic oscillations significantly overlap with the cytosines exhibiting age-related changes in their modification status. Our findings suggest that evolutionary advantageous processes such as circadian rhythmicity can also contribute to an organism's deterioration.

引用

页数：11

共 45 条

[1] Archer E, 2016, RFPERMUTE ESTIMATE
[2] Circadian behavior is light-reprogrammed by plastic DNA methylation
Azzi, Abdelhalim
Dallmann, Robert
Casserly, Alison
Rehrauer, Hubert
Patrignani, Andrea
Maier, Bert
Kramer, Achim
Brown, Steven A.
[J]. NATURE NEUROSCIENCE, 2014, 17 (03) : 377 - 382
[3] MEME SUITE: tools for motif discovery and searching
Bailey, Timothy L.
Boden, Mikael
Buske, Fabian A.
Frith, Martin
Grant, Charles E.
Clementi, Luca
Ren, Jingyuan
Li, Wilfred W.
Noble, William S.
[J]. NUCLEIC ACIDS RESEARCH, 2009, 37 : W202 - W208
[4] Circadian time signatures of fitness and disease
Bass, Joseph
Lazar, Mitchell A.
[J]. SCIENCE, 2016, 354 (6315) : 994 - 999
[5] Circadian rhythms from multiple oscillators: Lessons from diverse organisms
Bell-Pedersen, D
Cassone, VM
Earnest, DJ
Golden, SS
Hardin, PE
Thomas, TL
Zoran, MJ
[J]. NATURE REVIEWS GENETICS, 2005, 6 (07) : 544 - 556
[6] Changes in Nucleosome Occupancy Associated with Metabolic Alterations in Aged Mammalian Liver
Bochkis, Irina M.
Przybylski, Dariusz
Chen, Jenny
Regev, Aviv
[J]. CELL REPORTS, 2014, 9 (03): : 996 - 1006
[7] Trimmomatic: a flexible trimmer for Illumina sequence data
Bolger, Anthony M.
Lohse, Marc
Usadel, Bjoern
[J]. BIOINFORMATICS, 2014, 30 (15) : 2114 - 2120
[8] Quantitative Sequencing of 5-Methylcytosine and 5-Hydroxymethylcytosine at Single-Base Resolution
Booth, Michael J.
Branco, Miguel R.
Ficz, Gabriella
Oxley, David
Krueger, Felix
Reik, Wolf
Balasubramanian, Shankar
[J]. SCIENCE, 2012, 336 (6083) : 934 - 937
[9] Myc represses transcription through recruitment of DNA methyltransferase corepressor
Brenner, C
Deplus, R
Didelot, C
Loriot, A
Viré, E
De Smet, C
Gutierrez, A
Danovi, D
Bernard, D
Boon, T
Pelicci, PG
Amati, B
Kouzarides, T
de Launoit, Y
Di Croce, L
Fuks, F
[J]. EMBO JOURNAL, 2005, 24 (02) : 336 - 346
[10] DNA methylation-based measures of biological age: meta-analysis predicting time to death
Chen, Brian H.
Marioni, Riccardo E.
Colicino, Elena
Peters, Marjolein J.
Ward-Caviness, Cavin K.
Tsai, Pei-Chien
Roetker, Nicholas S.
Just, Allan C.
Demerath, Ellen W.
Guan, Weihua
Bressler, Jan
Fornage, Myriam
Studenski, Stephanie
Vandiver, Amy R.
Moore, Ann Zenobia
Tanaka, Toshiko
Kiel, Douglas P.
Liang, Liming
Vokonas, Pantel
Schwartz, Joel
Lunetta, Kathryn L.
Murabito, Joanne M.
Bandinelli, Stefania
Hernandez, Dena G.
Melzer, David
Nalls, Michael
Pilling, Luke C.
Price, Timothy R.
Singleton, Andrew B.
Gieger, Christian
Holle, Rolf
Kretschmer, Anja
Kronenberg, Florian
Kunze, Sonja
Linseisen, Jakob
Meisinger, Christine
Rathmann, Wolfgang
Waldenberger, Melanie
Visscher, Peter M.
Shah, Sonia
Wray, Naomi R.
McRae, Allan F.
Franco, Oscar H.
Hofman, Albert
Uitterlinden, Andre G.
Absher, Devin
Assimes, Themistocles
Levine, Morgan E.
Lu, Ake T.
Tsao, Philip S.
[J]. AGING-US, 2016, 8 (09): : 1844 - 1865

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