ArticleProceedings of the National Academy of Sciences of the United States of America2003
Targeted cytosine methylation for in vivo detection of protein-DNA interactions.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed.
- Detecting Protein-DNA binding in single molecules using antibody guided methylation.Epigenetics & chromatin · 2025Article
- Efficient Targeted DNA Methylation with dCas9-Coupled DNMT3A-DNMT3L Methyltransferase.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Polycomb-lamina antagonism partitions heterochromatin at the nuclear periphery.Nature communications · 2022Article
- Mapping beads on strings.Nature methods · 2022Article
- Chromatin accessibility profiling methods.Nature reviews. Methods primers · 2021Article
- DNA methylation and de-methylation using hybrid site-targeting proteins.Genome biology · 2018Review
- Finding of a highly efficient ZFN pair for Aqpep gene functioning in murine zygotes.The Journal of reproduction and development · 2015Article
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- Heterodimeric DNA methyltransferases as a platform for creating designer zinc finger methyltransferases for targeted DNA methylation in cells.Nucleic acids research · 2010Article
- In vivo methylation of mtDNA reveals the dynamics of protein-mtDNA interactions.Nucleic acids research · 2009Article
- Coupling phosphate homeostasis to cell cycle-specific transcription: mitotic activation of Saccharomyces cerevisiae PHO5 by Mcm1 and Forkhead proteins.Molecular and cellular biology · 2009Article
- An engineered split M.HhaI-zinc finger fusion lacks the intended methyltransferase specificity.Biochemical and biophysical research communications · 2008Article
- Single-molecule analysis of chromatin: changing the view of genomes one molecule at a time.Journal of cellular biochemistry · 2008Review
- Single-molecule and population probing of chromatin structure using DNA methyltransferases.Methods (San Diego, Calif.) · 2007Article
- Chimeric DNA methyltransferases target DNA methylation to specific DNA sequences and repress expression of target genes.Nucleic acids research · 2007Article
- Promoter occupancy is a major determinant of chromatin remodeling enzyme requirements.Molecular and cellular biology · 2005Article
- Effectors of lysine 4 methylation of histone H3 in Saccharomyces cerevisiae are negative regulators of PHO5 and GAL1-10.The Journal of biological chemistry · 2004Article
- Site-selective in vivo targeting of cytosine-5 DNA methylation by zinc-finger proteins.Nucleic acids research · 2003Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
We report a technique, named targeted gene methylation (TAGM), for identifying in vivo protein-binding sites in chromatin. M.CviPI, a cytosine-5 DNA methyltransferase recognizing GC sites, is fused to a DNA-binding factor enabling simultaneous detection of targeted methylation, factor footprints, and chromatin structural changes by bisulfite genomic sequencing. Using TAGM with the yeast transactivator Pho4, methylation enrichments of up to 34- fold occur proximal to native Pho4-binding sites. Additionally, significant selective targeting of methylation is observed several hundred nucleotides away, suggesting the detection of long-range interactions due to higher-order chromatin structure. In contrast, at an extragenic locus lacking Pho4-binding sites, methylation levels are at the detection limit at early times after Pho4 transactivation. Notably, substantial amounts of methylation are targeted by Pho4-M.CviPI under repressive conditions when most of the transactivator is excluded from the nucleus. Thus, TAGM enables rapid detection of DNA-protein interactions even at low occupancies and has potential for identifying factor targets at the genome-wide level. Extension of TAGM from yeast to vertebrates, which use methylation to initiate and propagate repressed chromatin, could also provide a valuable strategy for heritable inactivation of gene expression.
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