The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
DNMT1 and DNMT3b cooperate to silence genes in human cancer cells
Abstract
Inactivation of tumour suppressor genes is central to the development of all common forms of human cancer. This inactivation often results from epigenetic silencing associated with hypermethylation rather than intragenic mutations. In human cells, the mechanisms underlying locus-specific or global methylation patterns remain unclear. The prototypic DNA methyltransferase, Dnmt1, accounts for most methylation in mouse cells, but human cancer cells lacking DNMT1 retain significant genomic methylation and associated gene silencing. We disrupted the human DNMT3b gene in a colorectal cancer cell line. This deletion reduced global DNA methylation by less than 3%. Surprisingly, however, genetic disruption of both DNMT1 and DNMT3b nearly eliminated methyltransferase activity, and reduced genomic DNA methylation by greater than 95%. These marked changes resulted in demethylation of repeated sequences, loss of insulin-like growth factor II (IGF2) imprinting, abrogation of silencing of the tumour suppressor gene p16INK4a, and growth suppression. Here we demonstrate that two enzymes cooperatively maintain DNA methylation and gene silencing in human cancer cells, and provide compelling evidence that such methylation is essential for optimal neoplastic proliferation.
Overview
Integrity signals
Registry
Cites
Statistics
Verification
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Transcriptomic analysis of brains of adult Tert+/+ and G1 Tert−/− mice showed significant and specific reduction in expression of Dnmt3b.
“Transcriptomic analysis of the brains of adult Tert+/+ and first generation (G1) Tert−/− mice (with intact telomeres)16 showed significant and specific reduction in the expression of Dnmt3b (Figures S4E and S4F), a DNA methyltransferase responsible for the hypermethylation of p16Ink4a promoter.26”
From TERT activation targets DNA methylation and multiple aging hallmarks (2024) · cites this paper as [26]
Citations
Cites
Targeted mutation of the DNA methyltransferase gene results in embryonic lethality
Li, E., Bestor, T. H., & Jaenisch, R. (1992) · Cell · doi:10.1016/0092-8674(92)90611-f · Cited by 3,984
14-3-3σ is required to prevent mitotic catastrophe after DNA damage
Chan, T. A., Hermeking, H., Lengauer, C., Kinzler, K. W., & Vogelstein, B. (1999) · Nature · doi:10.1038/44188 · Cited by 895
Self-citationOn the mechanism of inhibition of DNA-cytosine methyltransferases by cytosine analogs
Santi, D. V., Garrett, C. E., & Barr, P. J. (1983) · Cell · doi:10.1016/0092-8674(83)90327-6 · Cited by 401
Flagged first, then by citations
Research works printed but not linked: 27
- Vogelstein, B. & Kinzler, K. W. The Genetic Basis of Human Cancer (McGraw-Hill Health Professions Division, New York, 1998).
- Siegfried, Z. & Cedar, H. DNA methylation: a molecular lock. Curr. Biol. 7, R305–R307 (1997). · DOI
- Bird, A. P. & Wolffe, A. P. Methylation-induced repression—belts, braces, and chromatin. Cell 99, 451–454 (1999). · DOI
- Robertson, K. D. & Jones, P. A. DNA methylation: past, present and future directions. Carcinogenesis 21, 461–467 (2000). · DOI
- Tycko, B. Epigenetic gene silencing in cancer. J. Clin. Invest. 105, 401–407 (2000). · DOI
- Baylin, S. B. & Herman, J. G. DNA hypermethylation in tumorigenesis: epigenetics joins genetics. Trends Genet. 16, 168–174 (2000). · DOI
- Ponder, B. A. Cancer genetics. Nature 411, 336–341 (2001). · DOI
- Eads, C. A. et al. CpG island hypermethylation in human colorectal tumors is not associated with DNA methyltransferase overexpression. Cancer Res. 59, 2302–2306 (1999).
- Schmutte, C., Yang, A. S., Nguyen, T. T., Beart, R. W. & Jones, P. A. Mechanisms for the involvement of DNA methylation in colon carcinogenesis. Cancer Res. 56, 2375–2381 (1996).
- Okano, M., Bell, D. W., Haber, D. A. & Li, E. DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development. Cell 99, 247–257 (1999). · DOI · Paper page
- Rhee, I. et al. CpG methylation is maintained in human cancer cells lacking DNMT1. Nature 404, 1003–1007 (2000). · DOI
- Bestor, T. H. The DNA methyltransferases of mammals. Hum. Mol. Genet. 9, 2395–2402 (2000). · DOI
- Kuo, K. C., McCune, R. A., Gehrke, C. W., Midgett, R. & Ehrlich, M. Quantitative reversed-phase high performance liquid chromatographic determination of major and modified deoxyribonucleosides in DNA. Nucleic Acids Res. 8, 4763–4776 (1980). · DOI
- Feinberg, A. P., Gehrke, C. W., Kuo, K. C. & Ehrlich, M. Reduced genomic 5-methylcytosine content in human colonic neoplasia. Cancer Res. 48, 1159–1161 (1988).
- Bachman, K. E. et al. Methylation-associated silencing of the tissue inhibitor of metalloproteinase-3 gene suggest a suppressor role in kidney, brain, and other human cancers. Cancer Res. 59, 798–802 (1999).
- Herman, J. G., Graff, J. R., Myohanen, S., Nelkin, B. D. & Baylin, S. B. Methylation-specific PCR: a novel PCR assay for methylation status of CpG islands. Proc. Natl Acad. Sci. USA 93, 9821–9826 (1996). · DOI
- Rainier, S. et al. Relaxation of imprinted genes in human cancer. Nature 362, 747–749 (1993). · DOI
- Ogawa, O. et al. Constitutional relaxation of insulin-like growth factor II gene imprinting associated with Wilms’ tumour and gigantism. Nature Genet. 5, 408–412 (1993). · DOI
- Steenman, M. et al. Loss of imprinting of IGF2 is linked to reduced expression and abnormal methylation of H19 in Wilms’ tumour. Nature Genet. 7, 433–439 (1994). · DOI
- Cui, H., Horon, I. L., Ohlsson, R., Hamilton, S. R. & Feinberg, A. P. Loss of imprinting in normal tissue of colorectal cancer patients with microsatellite instability. Nature Med. 4, 1276–1280. (1998). · DOI
- Uejima, H., Lee, M. P., Cui, H. & Feinberg, A. P. Hot-stop PCR: a simple and general assay for linear quantitation of allele ratios. Nature Genet. 25, 375–376 (2000). · DOI
- Myohanen, S. K., Baylin, S. B. & Herman, J. G. Hypermethylation can selectively silence individual p16ink4A alleles in neoplasia. Cancer Res. 58, 591–593 (1998).
- Okano, M., Xie, S. & Li, E. Cloning and characterization of a family of novel mammalian DNA (cytosine-5) methyltransferases. Nature Genet. 19, 219–220 (1998). · DOI
- Lyko, F. et al. Mammalian (cytosine-5) methyltransferases cause genomic DNA methylation and lethality in Drosophila. Nature Genet. 23, 363–366 (1999). · DOI
- Juttermann, R., Li, E. & Jaenisch, R. Toxicity of 5-aza-2′-deoxycytidine to mammalian cells is mediated primarily by covalent trapping of DNA methyltransferase rather than DNA demethylation. Proc. Natl Acad. Sci. USA 91, 11797–11801 (1994). · DOI
- Jackson-Grusby, L. et al. Loss of genomic methylation causes p53-dependent apoptosis and epigenetic deregulation. Nature Genet. 27, 31–39 (2001). · DOI · Paper page
- Vertino, P. M., Yen, R. W., Gao, J. & Baylin, S. B. De novo methylation of CpG island sequences in human fibroblasts overexpressing DNA (cytosine-5-)-methyltransferase. Mol. Cell Biol. 16, 4555–4565 (1996). · DOI
Cited by
Sorted by citations
Jaenisch, R., & Bird, A. (2003) · Nature Genetics · doi:10.1038/ng1089 · Cited by 6,325
The Polycomb group protein EZH2 directly controls DNA methylation
Viré, E., Brenner, C., Deplus, R., Blanchon, L., Fraga, M., Didelot, C., Morey, L., Van Eynde, A., Bernard, D., Vanderwinden, J.-M., et al. (2006) · Nature · doi:10.1038/nature04431 · Cited by 2,204
Chromatin modification and epigenetic reprogramming in mammalian development
Li, E. (2002) · Nature Reviews Genetics · doi:10.1038/nrg887 · Cited by 1,900
Gene Body Methylation Can Alter Gene Expression and Is a Therapeutic Target in Cancer
Yang, X., Han, H., De Carvalho, D. D., Lay, F. D., Jones, P. A., & Liang, G. (2014) · Cancer Cell · doi:10.1016/j.ccr.2014.07.028 · Cited by 1,199
Ohm, J. E., McGarvey, K. M., Yu, X., Cheng, L., Schuebel, K. E., Cope, L., Mohammad, H. P., Chen, W., Daniel, V. C., Yu, W., et al. (2007) · Nature Genetics · doi:10.1038/ng1972 · Cited by 1,130
Self-citationValidation of a DNA methylation microarray for 450,000 CpG sites in the human genome
Sandoval, J., Heyn, H., Moran, S., Serra-Musach, J., Pujana, M. A., Bibikova, M., & Esteller, M. (2011) · Epigenetics · doi:10.4161/epi.6.6.16196 · Cited by 990
Dnmt1 and Dnmt3a maintain DNA methylation and regulate synaptic function in adult forebrain neurons
Feng, J., Zhou, Y., Campbell, S. L., Le, T., Li, E., Sweatt, J. D., Silva, A. J., & Fan, G. (2010) · Nature Neuroscience · doi:10.1038/nn.2514 · Cited by 1,019
Epigenetic gene silencing in cancer: the DNA hypermethylome
Esteller, M. (2007) · Human Molecular Genetics · doi:10.1093/hmg/ddm018 · Cited by 725
Evaluation of the Infinium Methylation 450K technology
Dedeurwaerder, S., Defrance, M., Calonne, E., Denis, H., Sotiriou, C., & Fuks, F. (2011) · Epigenomics · doi:10.2217/epi.11.105 · Cited by 569
Maunakea, A. K., Chepelev, I., Cui, K., & Zhao, K. (2013) · Cell Research · doi:10.1038/cr.2013.110 · Cited by 552
Serre, D., Lee, B. H., & Ting, A. H. (2010) · Nucleic Acids Research · doi:10.1093/nar/gkp992 · Cited by 404
Fetahu, I. S., Höbaus, J., & Kállay, E. (2014) · Frontiers in Physiology · doi:10.3389/fphys.2014.00164 · Cited by 313
Akalin, A., Garrett-Bakelman, F. E., Kormaksson, M., Busuttil, J., Zhang, L., Khrebtukova, I., Milne, T. A., Huang, Y., Biswas, D., Hess, J. L., et al. (2012) · PLoS Genetics · doi:10.1371/journal.pgen.1002781 · Cited by 296
Marked for death: Targeting epigenetic changes in cancer
Pfister, S. X., & Ashworth, A. (2017) · Nature Reviews Drug Discovery · doi:10.1038/nrd.2016.256 · Cited by 288
Role of DNA Methylation in Modulating Transcription Factor Occupancy
Maurano, M. T., Wang, H., John, S., Shafer, A., Canfield, T., Lee, K., & Stamatoyannopoulos, J. A. (2015) · Cell Reports · doi:10.1016/j.celrep.2015.07.024 · Cited by 281
Next is now: new technologies for sequencing of genomes, transcriptomes, and beyond
Lister, R., Gregory, B. D., & Ecker, J. R. (2009) · Current Opinion in Plant Biology · doi:10.1016/j.pbi.2008.11.004 · Cited by 274
Zinn, R. L., Pruitt, K., Eguchi, S., Baylin, S. B., & Herman, J. G. (2007) · Cancer Research · doi:10.1158/0008-5472.can-06-3396 · Cited by 210
Self-citationTakahashi, A., Imai, Y., Yamakoshi, K., Kuninaka, S., Ohtani, N., Yoshimoto, S., Hori, S., Tachibana, M., Anderton, E., Takeuchi, T., et al. (2012) · Molecular Cell · doi:10.1016/j.molcel.2011.10.018 · Cited by 205
Epigenetic restriction of extraembryonic lineages mirrors the somatic transition to cancer
Smith, Z. D., Shi, J., Gu, H., Donaghey, J., Clement, K., Cacchiarelli, D., Gnirke, A., Michor, F., & Meissner, A. (2017) · Nature · doi:10.1038/nature23891 · Cited by 201
Wu, Y., Strawn, E., Basir, Z., Halverson, G., & Guo, S.-W. (2007) · Fertility and Sterility · doi:10.1016/j.fertnstert.2006.05.077 · Cited by 193
Charlet, J., Duymich, C. E., Lay, F. D., Mundbjerg, K., Dalsgaard Sørensen, K., Liang, G., & Jones, P. A. (2016) · Molecular Cell · doi:10.1016/j.molcel.2016.03.033 · Cited by 128
Sharma, S., De Carvalho, D. D., Jeong, S., Jones, P. A., & Liang, G. (2011) · PLoS Genetics · doi:10.1371/journal.pgen.1001286 · Cited by 119
Desaulniers, D., Xiao, G.-H., Lian, H., Feng, Y.-L., Zhu, J., Nakai, J., & Bowers, W. J. (2009) · International Journal of Toxicology · doi:10.1177/1091581809337918 · Cited by 114
TERT activation targets DNA methylation and multiple aging hallmarks
Shim, H. S., Iaconelli, J., Shang, X., Li, J., Lan, Z. D., Jiang, S., Nutsch, K., Beyer, B. A., Lairson, L. L., Boutin, A. T., et al. (2024) · Cell · doi:10.1016/j.cell.2024.05.048 · Cited by 104
Telomerase efficiently elongates highly transcribing telomeres in human cancer cells
Farnung, B. O., Brun, C. M., Arora, R., Lorenzi, L. E., & Azzalin, C. M. (2012) · PLoS ONE · doi:10.1371/journal.pone.0035714 · Cited by 91
DNA Methylation, Genomic Silencing, and Links to Nutrition and Cancer
McCabe, D. C., & Caudill, M. A. (2005) · Nutrition Reviews · doi:10.1111/j.1753-4887.2005.tb00136.x · Cited by 78
Senescence and epigenetic dysregulation in cancer
Neumeister, P., Albanese, C., Balent, B., Greally, J., & Pestell, R. G. (2002) · The International Journal of Biochemistry & Cell Biology · doi:10.1016/s1357-2725(02)00079-1 · Cited by 56
Desaulniers, D., Xiao, G.-H., Leingartner, K., Chu, I., Musicki, B., & Tsang, B. K. (2005) · Toxicological Sciences · doi:10.1093/toxsci/kfi178 · Cited by 50
Ford, E., Grimmer, M. R., Stolzenburg, S., Bogdanovic, O., Mendoza, A. D., Farnham, P. J., Blancafort, P., & Lister, R. (2017) · doi:10.1101/170506 · Cited by 45
Kutay, H., Klepper, C., Wang, B., Hsu, S.-H., Datta, J., Yu, L., Zhang, X., Majumder, S., Motiwala, T., Khan, N., et al. (2012) · PLoS ONE · doi:10.1371/journal.pone.0041949 · Cited by 23
RAS oncogene-mediated deregulation of the transcriptome: From molecular signature to function
Schäfer, R., & Sers, C. (2011) · Advances in Enzyme Regulation · doi:10.1016/j.advenzreg.2010.11.005 · Cited by 12
Metadata
- Authors
- Rhee, I., Bachman, K. E., Park, B. H., Jair, K.-W., Yen, R.-W. C., Schuebel, K. E., Cui, H., Feinberg, A. P., Lengauer, C., Kinzler, K. W., Baylin, S. B., & Vogelstein, B.
- Venue
- Nature
- Published
- 2002-04
- Volume
- 416
- Issue
- 6880
- Pages
- 552-556
- ISSN
- 0028-0836
- 1476-4687
- Cited by
- 1,039
- References
- 3
- Language
- en
- Licence
- www.springer.com/tdm (tdm)
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
Are you an author, or do you see a problem with this page? Request a review