ArticleGenome research2014
Genome-wide high resolution parental-specific DNA and histone methylation maps uncover patterns of imprinting regulation in maize.
Article in Genome research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 92 papers.
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Who cites it
92 citing papers in PubMed.
- Atypical E2F transcription factors couple Polycomb Repressive Complex 2 to endosperm cell division and differentiation.Nature plants · 2026Article
- Molecular understanding of plant pollination, fertilization, seed development and protoplast regeneration.Science China. Life sciences · 2026Review
- Constitutive and tissue-specific target site preferences of the maize Mutator transposon.bioRxiv : the preprint server for biology · 2026Article
- DNA methylation remodeling reveals epigenetic regulation of early embryogenesis in Arabidopsis hybrid.Communications biology · 2026Article
- EMF2b-1 regulates endosperm cell cycling through PRC2 recruitment in maize.Genome biology · 2026Article
- Transposable element-mediated DNA methylation of the NAC20 and NAC26 promoters led to a maternal effect on grain filling.Journal of integrative plant biology · 2026Article
- Epigenetic control of seed development and dormancy in cereals.Plant signaling & behavior · 2025Review
- Decades' progress and prospects on maize functional genomics and molecular breeding.Science China. Life sciences · 2025Review
- Imprinting and DNA Methylation in Water Lily Endosperm: Implications for Seed Evolution.Molecular biology and evolution · 2025Article
- MDR1 DNA glycosylase regulates the expression of genomically imprinted genes and Helitrons.The Plant journal : for cell and molecular biology · 2025Article
- Using targeted genome methylation for crop improvement.Journal of experimental botany · 2025Review
- Empowering plant epigenetics to breed resilience of crops: From nucleolar dominance to transgenerational epigenetic inheritance.The plant genome · 2025Review
- Conservation of imprinted expression across genotypes is correlated with consistency of imprinting across endosperm development in maize.G3 (Bethesda, Md.) · 2025Article
- Maternally expressed FERTILIZATION-INDEPENDENT ENDOSPERM1 regulates seed dormancy and aleurone development in rice.The Plant cell · 2024Article
- Biparental graph strategy to represent and analyze hybrid plant genomes.Plant physiology · 2024Article
- Epigenetic and transcriptional consequences in the endosperm of chemically induced transposon mobilization in Arabidopsis.Nucleic acids research · 2024Article
- Molecular basis and evolutionary drivers of endosperm-based hybridization barriers.Plant physiology · 2024Review
- The conservation of allelic DNA methylation and its relationship with imprinting in maize.Journal of experimental botany · 2024Article
- Review
- Mutation in Polycomb repressive complex 2 gene OsFIE2 promotes asexual embryo formation in rice.Nature plants · 2023Article
32 more citing papers are in PubMed but not listed here.
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15 authors.
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Abstract
Genetic imprinting is a specific epigenetic phenomenon in which a subset of genes is expressed depending on their parent-of-origin. Two types of chromatin modifications, DNA methylation and histone modification, are generally believed to be involved in the regulation of imprinting. However, the genome-wide correlation between allele-specific chromatin modifications and imprinted gene expression in maize remains elusive. Here we report genome-wide high resolution allele-specific maps of DNA methylation and histone H3 lysine 27 trimethylation (H3K27me3) in maize endosperm. For DNA methylation, thousands of parent-of-origin dependent differentially methylated regions (pDMRs) were identified. All pDMRs were uniformly paternally hypermethylated and maternally hypomethylated. We also identified 1131 allele-specific H3K27me3 peaks that are preferentially present in the maternal alleles. Maternally expressed imprinted genes (MEGs) and paternally expressed imprinted genes (PEGs) had different patterns of allele-specific DNA methylation and H3K27me3. Allele-specific expression of MEGs was not directly related to allele-specific H3K27me3, and only a subset of MEGs was associated with maternal-specific DNA demethylation, which was primarily located in the upstream and 5' portion of gene body regions. In contrast, allele-specific expression of a majority of PEGs was related to maternal-specific H3K27me3, with a subgroup of PEGs also associated with maternal-specific DNA demethylation. Both pDMRs and maternal H3K27me3 peaks associated with PEGs are enriched in gene body regions. Our results indicate highly complex patterns of regulation on genetic imprinting in maize endosperm.
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