ArticlePloS one2013
Detection of oxidation products of 5-methyl-2'-deoxycytidine in Arabidopsis DNA.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 32 citations in OpenAlex.
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- Epigenetic Regulation of Salt Stress Responses in Rice: Mechanisms and Prospects for Enhancing Tolerance.Epigenomes · 2025Review
- DNA Methylation in Rice: Mechanisms, Regulatory Roles, and Beyond.International journal of molecular sciences · 2025Review
- Impact of cryopreservation on DNA damage in Acer platanoides L. seeds evaluated by the comet assay.Scientific reports · 2025Article
- Exploring the crop epigenome: a comparison of DNA methylation profiling techniques.Frontiers in plant science · 2023Review
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- Epigenetic regulation of salinity stress responses in cereals.Molecular biology reports · 2022Review
- Mass spectrometry reveals the presence of specific set of epigenetic DNA modifications in the Norway spruce genome.Scientific reports · 2019Article
- Evidence for novel epigenetic marks within plants.AIMS genetics · 2019Article
- Genome-wide DNA Methylation analysis in response to salinity in the model plant caliph medic (Medicago truncatula).BMC genomics · 2018Article
- DNA Methylation and the Evolution of Developmental Complexity in Plants.Frontiers in plant science · 2018Review
- Differential DNA methylation and transcription profiles in date palm roots exposed to salinity.PloS one · 2018Article
- New Insights into 5hmC DNA Modification: Generation, Distribution and Function.Frontiers in genetics · 2017Review
- Mass spectrometry for the assessment of the occurrence and biological consequences of DNA adducts.Chemical Society reviews · 2015Review
- Genome-wide mapping of 5-hydroxymethylcytosine in three rice cultivars reveals its preferential localization in transcriptionally silent transposable element genes.Journal of experimental botany · 2015Article
- Global 5-methylcytosine alterations in DNA during ageing of Quercus robur seeds.Annals of botany · 2015Article
- Formation and abundance of 5-hydroxymethylcytosine in RNA.Chembiochem : a European journal of chemical biology · 2015Article
- 5-hydroxymethylcytosine is not present in appreciable quantities in Arabidopsis DNA.G3 (Bethesda, Md.) · 2014Article
- Quantitative mass spectrometry-based analysis of β-D-glucosyl-5-hydroxymethyluracil in genomic DNA of Trypanosoma brucei.Journal of the American Society for Mass Spectrometry · 2014Article
- The role of 5-hydroxymethylcytosine in human cancer.Cell and tissue research · 2014Review
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 3 countries.
Funding
Abstract
Epigenetic regulations play important roles in plant development and adaptation to environmental stress. Recent studies from mammalian systems have demonstrated the involvement of ten-eleven translocation (Tet) family of dioxygenases in the generation of a series of oxidized derivatives of 5-methylcytosine (5-mC) in mammalian DNA. In addition, these oxidized 5-mC nucleobases have important roles in epigenetic remodeling and aberrant levels of 5-hydroxymethyl-2'-deoxycytidine (5-HmdC) were found to be associated with different types of human cancers. However, there is a lack of evidence supporting the presence of these modified bases in plant DNA. Here we reported the use of a reversed-phase HPLC coupled with tandem mass spectrometry method and stable isotope-labeled standards for assessing the levels of the oxidized 5-mC nucleosides along with two other oxidatively induced DNA modifications in genomic DNA of Arabidopsis. These included 5-HmdC, 5-formyl-2'-deoxycytidine (5-FodC), 5-carboxyl-2'-deoxycytidine (5-CadC), 5-hydroxymethyl-2'-deoxyuridine (5-HmdU), and the (5'S) diastereomer of 8,5'-cyclo-2'-deoxyguanosine (S-cdG). We found that, in Arabidopsis DNA, the levels of 5-HmdC, 5-FodC, and 5-CadC are approximately 0.8 modifications per 10(6) nucleosides, with the frequency of 5-HmdC (per 5-mdC) being comparable to that of 5-HmdU (per thymidine). The relatively low levels of the 5-mdC oxidation products suggest that they arise likely from reactive oxygen species present in cells, which is in line with the lack of homologous Tet-family dioxygenase enzymes in Arabidopsis.
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