ArticleNucleic acids research2011
A novel method for the efficient and selective identification of 5-hydroxymethylcytosine in genomic DNA.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed.
- Pioneering contribution of Professor Bruce Ames to early development in biochemical aspects of oxidatively generated damage to DNA.Frontiers in molecular biosciences · 2025Review
- Methods for Detection and Mapping of Methylated and Hydroxymethylated Cytosine in DNA.Biomolecules · 2024Review
- TET (Ten-eleven translocation) family proteins: structure, biological functions and applications.Signal transduction and targeted therapy · 2023Review
- MIAOME: Human microbiome affect the host epigenome.Computational and structural biotechnology journal · 2022Article
- Quantification and mapping of DNA modifications.RSC chemical biology · 2021Review
- DNA methylation methods: Global DNA methylation and methylomic analyses.Methods (San Diego, Calif.) · 2021Review
- 5-hydroxymethylcytosine Marks Mammalian Origins Acting as a Barrier to Replication.Scientific reports · 2019Article
- Inhibition of DNA methyltransferase leads to increased genomic 5-hydroxymethylcytosine levels in hematopoietic cells.FEBS open bio · 2018Article
- Tet-Assisted Bisulfite Sequencing (TAB-seq).Methods in molecular biology (Clifton, N.J.) · 2018Article
- A method for the efficient and selective identification of 5-hydroxymethyluracil in genomic DNA.Biology methods & protocols · 2017Article
- Effect of Hydroxymethylcytosine on the Structure and Stability of Holliday Junctions.Biochemistry · 2016Article
- 5-hydroxymethylation of the EBV genome regulates the latent to lytic switch.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Chemical methods for decoding cytosine modifications in DNA.Chemical reviews · 2015Review
- TET family proteins: oxidation activity, interacting molecules, and functions in diseases.Chemical reviews · 2015Review
- Article
- Endonuclease G preferentially cleaves 5-hydroxymethylcytosine-modified DNA creating a substrate for recombination.Nucleic acids research · 2014Article
- Boronic acid-mediated polymerase chain reaction for gene- and fragment-specific detection of 5-hydroxymethylcytosine.Nucleic acids research · 2014Article
- Epigenetic modification, dehydration, and molecular crowding effects on the thermodynamics of i-motif structure formation from C-rich DNA.Biochemistry · 2014Article
- Article
- Mechanism and function of oxidative reversal of DNA and RNA methylation.Annual review of biochemistry · 2014Review
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6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Recently, 5-hydroxymethylcytosine (5hmC) was identified in mammalian genomic DNA. The biological role of this modification remains unclear; however, identifying the genomic location of this modified base will assist in elucidating its function. We describe a method for the rapid and inexpensive identification of genomic regions containing 5hmC. This method involves the selective glucosylation of 5hmC residues by the β-glucosyltransferase from T4 bacteriophage creating β-glucosyl-5-hydroxymethylcytosine (β-glu-5hmC). The β-glu-5hmC modification provides a target that can be efficiently and selectively pulled down by J-binding protein 1 coupled to magnetic beads. DNA that is precipitated is suitable for analysis by quantitative PCR, microarray or sequencing. Furthermore, we demonstrate that the J-binding protein 1 pull down assay identifies 5hmC at the promoters of developmentally regulated genes in human embryonic stem cells. The method described here will allow for a greater understanding of the temporal and spatial effects that 5hmC may have on epigenetic regulation at the single gene level.
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