ArticleG3 (Bethesda, Md.)2014
5-hydroxymethylcytosine is not present in appreciable quantities in Arabidopsis DNA.
Article in G3 (Bethesda, Md.), 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
24 citing papers in PubMed, 45 citations in OpenAlex.
- Article
- DNA methylation in wheat: current understanding and future potential for enhancing biotic and abiotic stress tolerance.Physiology and molecular biology of plants : an international journal of functional plant biology · 2024Review
- Non-canonical bases differentially represented in the sex chromosomes of the dioecious plant Silene latifolia.Journal of experimental botany · 2024Article
- The role of epigenetic and epitranscriptomic modifications in plants exposed to non-essential metals.Frontiers in plant science · 2023Review
- Exploring the crop epigenome: a comparison of DNA methylation profiling techniques.Frontiers in plant science · 2023Review
- Article
- Kozak Sequence Acts as a Negative Regulator for De Novo Transcription Initiation of Newborn Coding Sequences in the Plant Genome.Molecular biology and evolution · 2021Article
- De novo activated transcription of inserted foreign coding sequences is inheritable in the plant genome.PloS one · 2021Article
- DNA methylation analysis in plants: review of computational tools and future perspectives.Briefings in bioinformatics · 2020Review
- Discovery of a new predominant cytosine DNA modification that is linked to gene expression in malaria parasites.Nucleic acids research · 2020Article
- Mass spectrometry reveals the presence of specific set of epigenetic DNA modifications in the Norway spruce genome.Scientific reports · 2019Article
- Reactive Oxygen Species as Potential Drivers of the Seed Aging Process.Plants (Basel, Switzerland) · 2019Review
- Ascorbic Acid and Ozone: Novel Perspectives to Explain an Elusive Relationship.Plants (Basel, Switzerland) · 2019Review
- Evidence for novel epigenetic marks within plants.AIMS genetics · 2019Article
- TET-mediated epimutagenesis of the Arabidopsis thaliana methylome.Nature communications · 2018Article
- Genome-wide DNA Methylation analysis in response to salinity in the model plant caliph medic (Medicago truncatula).BMC genomics · 2018Article
- Epigenetics of Modified DNA Bases: 5-Methylcytosine and Beyond.Frontiers in genetics · 2018Review
- Differential DNA methylation and transcription profiles in date palm roots exposed to salinity.PloS one · 2018Article
- Effect of cadmium on cytosine hydroxymethylation in gastropod hepatopancreas.Environmental science and pollution research international · 2017Article
- Putting DNA methylation in context: from genomes to gene expression in plants.Biochimica et biophysica acta. Gene regulatory mechanisms · 2017Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
5-Hydroxymethylcytosine (5-hmC) is an intermediate in active demethylation in metazoans, as well as a potentially stable epigenetic mark. Previous reports investigating 5-hydroxymethylcytosine in plants have reached conflicting conclusions. We systematically investigated whether 5-hmC is present in plant DNA using a range of methods. Using the model organism Arabidopsis thaliana, in addition to other plant species, we assayed the amount or distribution of 5-hydroxymethylcytosine by thin-layer chromatography, immunoprecipitation-chip, ELISA, enzymatic radiolabeling, and mass spectrometry. The failure to observe 5-hydroxymethylcytosine by thin-layer chromatography established an upper bound for the possible fraction of the nucleotide in plant DNA. Antibody-based methods suggested that there were low levels of 5-hmC in plant DNA, but these experiments were potentially confounded by cross-reactivity with the abundant base 5-methylcytosine. Enzymatic radiolabeling and mass spectrometry, the most sensitive methods for detection that we used, failed to detect 5-hydroxymethylcytosine in A. thaliana genomic DNA isolated from a number of different tissue types and genetic backgrounds. Taken together, our results led us to conclude that 5-hmC is not present in biologically relevant quantities within plant genomic DNA.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.