ArticlePloS one2014
Genomic distribution of H3K9me2 and DNA methylation in a maize genome.
Article in PloS one, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 89 papers.
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Who cites it
89 citing papers in PubMed.
- Transposon expansion is associated with reorganization of small RNA and DNA methylation landscapes in the morphologically minimal angiosperm Wolffia brasiliensis.The Plant journal : for cell and molecular biology · 2026Article
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- Connecting Epigenetic and Genetic Diversity of LTR Retrotransposons in Sunflower (Plants (Basel, Switzerland) · 2026Article
- Factors determining chromosomal localization of transposable elements in plants.Plant biology (Stuttgart, Germany) · 2025Review
- Epigenetic gene regulation in plants and its potential applications in crop improvement.Nature reviews. Molecular cell biology · 2025Review
- Drought-induced transposon expression reveals complex drought response mechanisms inFrontiers in plant science · 2025Article
- An epiallele of a gene encoding a PfkB-type carbohydrate kinase affects plant architecture in maize.The Plant cell · 2024Article
- Expanding the BonnMu sequence-indexed repository of transposon induced maize (Zea mays L.) mutations in dent and flint germplasm.The Plant journal : for cell and molecular biology · 2024Article
- DNA Methylation is Involved in Sex Determination in Spinach.Biochemical genetics · 2024Article
- RNA-directed DNA methylation mutants reduce histone methylation at the paramutated maize booster1 enhancer.Plant physiology · 2024Article
- Epigenetic variation in early and late flowering plants of the rubber-producing Russian dandelion Taraxacum koksaghyz provides insights into the regulation of flowering time.Scientific reports · 2024Article
- Establishing an optimized ATAC-seq protocol for the maize.Frontiers in plant science · 2024Article
- Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica.Genome biology and evolution · 2023Article
- Selection signatures and population dynamics of transposable elements in lima bean.Communications biology · 2023Article
- Sorghum root epigenetic landscape during limiting phosphorus conditions.Plant direct · 2022Article
- Insights into the expression of DNA (de)methylation genes responsive to nitric oxide signaling in potato resistance to late blight disease.Frontiers in plant science · 2022Article
- Drought induces variation in the DNA methylation status of the barley HvDME promoter.Journal of plant research · 2021Article
- Intragenic heterochromatin-mediated alternative polyadenylation modulates miRNA and pollen development in rice.The New phytologist · 2021Article
- The Underlying Nature of Epigenetic Variation: Origin, Establishment, and Regulatory Function of Plant Epialleles.International journal of molecular sciences · 2021Review
- Stability of DNA methylation and chromatin accessibility in structurally diverse maize genomes.G3 (Bethesda, Md.) · 2021Article
29 more citing papers are in PubMed but not listed here.
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8 authors.
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Abstract
DNA methylation and dimethylation of lysine 9 of histone H3 (H3K9me2) are two chromatin modifications that can be associated with gene expression or recombination rate. The maize genome provides a complex landscape of interspersed genes and transposons. The genome-wide distribution of DNA methylation and H3K9me2 were investigated in seedling tissue for the maize inbred B73 and compared to patterns of these modifications observed in Arabidopsis thaliana. Most maize transposons are highly enriched for DNA methylation in CG and CHG contexts and for H3K9me2. In contrast to findings in Arabidopsis, maize CHH levels in transposons are generally low but some sub-families of transposons are enriched for CHH methylation and these families exhibit low levels of H3K9me2. The profile of modifications over genes reveals that DNA methylation and H3K9me2 is quite low near the beginning and end of genes. Although elevated CG and CHG methylation are found within gene bodies, CHH and H3K9me2 remain low. Maize has much higher levels of CHG methylation within gene bodies than observed in Arabidopsis and this is partially attributable to the presence of transposons within introns for some maize genes. These transposons are associated with high levels of CHG methylation and H3K9me2 but do not appear to prevent transcriptional elongation. Although the general trend is for a strong depletion of H3K9me2 and CHG near the transcription start site there are some putative genes that have high levels of these chromatin modifications. This study provides a clear view of the relationship between DNA methylation and H3K9me2 in the maize genome and how the distribution of these modifications is shaped by the interplay of genes and transposons.
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