The DNA methylation landscape of human early embryos

Nature

Volumn 511, Issue 7511, 2014, Pages 606-610

  Guo, Hongshan ^a   Zhu, Ping ^a,b   Yan, Liying ^a,c   Li, Rong ^a,c   Hu, Boqiang ^a   Lian, Ying ^a,c   Yan, Jie ^a,c   Ren, Xiulian ^a,c   Lin, Shengli ^a,c   Li, Junsheng ^a,c   Jin, Xiaohu ^a,c   Shi, Xiaodan ^a,c   Liu, Ping ^a,c   Wang, Xiaoye ^d   Wang, Wei ^d   Wei, Yuan ^d   Li, Xianlong ^a   Guo, Fan ^a   Wu, Xinglong ^a   Fan, Xiaoying ^a   Yong, Jun ^a,e   Wen, Lu ^a   Xie, Sunney X ^a,e   Tang, Fuchou ^a,c   Qiao, Jie ^a,c   more..

^a PEKING UNIVERSITY   (China)

^b Tsinghua University   (China)

^c BEIJING UNIVERSITY OF POSTS AND TELECOMMUNICATIONS   (China)

^d PEKING UNIVERSITY THIRD HOSPITAL   (China)

^e HARVARD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; HISTONE;

ANIMAL CELL; ARTICLE; CHROMATIN IMMUNOPRECIPITATION; CONSTITUTIVE HETEROCHROMATIN; CONTROLLED STUDY; CPG ISLAND; DEMETHYLATION; DNA METHYLATION; EMBRYO; EMBRYO DEVELOPMENT; EMBRYONIC STEM CELL; ENHANCER REGION; FEMALE; GENE EXPRESSION; GENETIC ASSOCIATION; GERM CELL; HISTONE MODIFICATION; HUMAN; HUMAN CELL; HUMAN EMBRYO; HUMAN GENOME; MALE; MOUSE; MOUSE EMBRYO; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; SHORT INTERSPERSED REPEAT; TRANSPOSON; VARIABLE NUMBER OF TANDEM REPEAT; ZYGOTE;

ANIMALS; DNA METHYLATION; DNA TRANSPOSABLE ELEMENTS; EMBRYO, MAMMALIAN; EMBRYONIC STEM CELLS; EPIGENESIS, GENETIC; FEMALE; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, DEVELOPMENTAL; GERM CELLS; HISTONES; HUMANS; LONG INTERSPERSED NUCLEOTIDE ELEMENTS; MALE; MICE; PROMOTER REGIONS, GENETIC; SHORT INTERSPERSED NUCLEOTIDE ELEMENTS;

EID: 84905030212     PISSN: 00280836     EISSN: 14764687     Source Type: Journal    
DOI: 10.1038/nature13544     Document Type: Article

References (26)

1. Bird, A. DNA methylation patterns and epigenetic memory. Genes Dev. 16, 6-21 (2002).
2. Feng, S., Jacobsen, S. E. & Reik, W. Epigenetic reprogramming in plant and animal development. Science 330, 622-627 (2010).
3. Fulka, H., Mrazek, M., Tepla, O. & Fulka, J. Jr. DNA methylation pattern in human zygotes and developing embryos. Reproduction 128, 703-708 (2004).
4. Li, E., Beard, C. & Jaenisch, R. Role for DNA methylation in genomic imprinting. Nature 366, 362-365 (1993).
5. Hackett, J. A. & Surani, M. A. DNA methylation dynamics during the mammalian life cycle. Phil. Trans. R. Soc. B 368, 20110328 (2013).
6. Lister, R. et al. Human DNA methylomes at base resolution show widespread epigenomic differences. Nature 462, 315-322 (2009).
7. Wu, H. & Zhang, Y. Early embryos reprogram DNA methylation in two steps. Cell Stem Cell 10, 487-489 (2012).
8. Smallwood, S. A. et al. Dynamic CpG island methylation landscape in oocytes and preimplantation embryos. Nature Genet. 43, 811-814 (2011).
9. Smith, Z. D. et al. A unique regulatory phase of DNA methylation in the early mammalian embryo. Nature 484, 339-344 (2012).
10. Shirane, K. et al.Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases. PLoS Genet. 9, e1003439 (2013).
11. Seisenberger, S. et al. The dynamics of genome-wide DNA methylation reprogramming in mouse primordial germ cells. Mol. Cell 48, 849-862 (2012).
12. Jaenisch, R. & Bird, A. Epigenetic regulation of gene expression: how the genome integrates intrinsic and environmental signals. Nature Genet. 33 (suppl.),245-254 (2003).
13. Sasaki, H. & Matsui, Y. Epigenetic events in mammalian germ-cell development: reprogramming and beyond. Nature Rev. Genet. 9, 129-140 (2008).
14. Tomizawa, S. et al. Dynamic stage-specific changes in imprinted differentially methylated regions during early mammalian development and prevalence of non-CpG methylation in oocytes. Development 138, 811-820 (2011).
15. Guo, H. et al. Single-cell methylome landscapes of mouse embryonic stem cells and early embryos analyzed using reduced representation bisulfite sequencing. Genome Res. 23, 2126-2135 (2013).
16. Jones, P. A. Functions of DNA methylation: islands, start sites, gene bodies and beyond. Nature Rev. Genet. 13, 484-492 (2012).
17. Zhu, J. et al. Genome-wide chromatin state transitions associated with developmental and environmental cues. Cell 152, 642-654 (2013).
18. The ENCODE Project Consortium. An integrated encyclopedia of DNA elements in the human genome. Nature 489, 57-74 (2012).
19. O'Leary, T. et al. Tracking the progression of the human inner cell mass during embryonic stem cell derivation. Nature Biotechnol. 30, 278-282 (2012).
20. Xie, W. et al. Epigenomic analysis of multilineage differentiation of human embryonic stem cells. Cell 153, 1134-1148 (2013).
21. Gifford, C. A. et al. Transcriptional and epigenetic dynamics during specification of human embryonic stem cells. Cell 153, 1149-1163 (2013).
22. Mikkelsen, T. S. et al. Genome-wide maps of chromatin state in pluripotent and lineage-committed cells. Nature 448, 553-560 (2007).
23. Yan, L. et al. Single-cellRNA-Seq profiling of human preimplantationembryos and embryonic stem cells. Nature Struct. Mol. Biol. 20, 1131-1139 (2013).
24. Niakan, K. K., Han, J., Pedersen, R. A., Simon, C. & Pera, R. A. Human pre-implantation embryo development. Development 139, 829-841 (2012).
25. Cordaux, R. & Batzer, M. A. The impact of retrotransposons on human genome evolution. Nature Rev. Genet. 10, 691-703 (2009).
26. Molaro, A. et al. Sperm methylation profiles reveal features of epigenetic inheritance and evolution in primates. Cell 146, 1029-1041 (2011).