ArticleProceedings of the National Academy of Sciences of the United States of America2013
Comprehensive analysis of imprinted genes in maize reveals allelic variation for imprinting and limited conservation with other species.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 68 papers.
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Who cites it
68 citing papers in PubMed.
- Limited directional selection but coevolutionary signals among imprinted genes inbioRxiv : the preprint server for biology · 2026Article
- Genomic imprinting in an early-diverging angiosperm reveals an ancient mechanism for seed initiation in flowering plants.The New phytologist · 2026Article
- Conservation of imprinted expression across genotypes is correlated with consistency of imprinting across endosperm development in maize.G3 (Bethesda, Md.) · 2025Article
- Parent-of-origin effects orchestrate transcriptional reprogramming and epigenetic regulation of seedling vigor heterosis in triploid loquat.Frontiers in plant science · 2025Article
- Hormonal regulation and crosstalk during early endosperm and seed coat development.Plant reproduction · 2024Review
- United by conflict: Convergent signatures of parental conflict in angiosperms and placental mammals.The Journal of heredity · 2024Review
- Parental dialectic: Epigenetic conversations in endosperm.Current opinion in plant biology · 2024Review
- Upstream regulator of genomic imprinting in rice endosperm is a small RNA-associated chromatin remodeler.Nature communications · 2024Article
- Imprinting but not cytonuclear interactions determines seed size heterosis in Arabidopsis hybrids.Plant physiology · 2024Article
- Molecular basis and evolutionary drivers of endosperm-based hybridization barriers.Plant physiology · 2024Review
- High- or Low-Yielding FInternational journal of molecular sciences · 2024Article
- The conservation of allelic DNA methylation and its relationship with imprinting in maize.Journal of experimental botany · 2024Article
- Mutation in Polycomb repressive complex 2 gene OsFIE2 promotes asexual embryo formation in rice.Nature plants · 2023Article
- Transcriptome-wide identification and characterization of genes exhibit allele-specific imprinting in maize embryo and endosperm.BMC plant biology · 2023Article
- Transgenerational Paternal Inheritance ofInternational journal of molecular sciences · 2023Article
- Conserved noncoding sequences and de novo Mutator insertion alleles are imprinted in maize.Plant physiology · 2023Article
- Conservation Study of Imprinted Genes in Maize Triparental Heterozygotic Kernels.International journal of molecular sciences · 2022Article
- Developing Genetic Engineering Techniques for Control of Seed Size and Yield.International journal of molecular sciences · 2022Review
- The maize gene maternal derepression of r1 encodes a DNA glycosylase that demethylates DNA and reduces siRNA expression in the endosperm.The Plant cell · 2022Article
- DNA demethylation affects imprinted gene expression in maize endosperm.Genome biology · 2022Article
8 more citing papers are in PubMed but not listed here.
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7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
In plants, a subset of genes exhibit imprinting in endosperm tissue such that expression is primarily from the maternal or paternal allele. Imprinting may arise as a consequence of mechanisms for silencing of transposons during reproduction, and in some cases imprinted expression of particular genes may provide a selective advantage such that it is conserved across species. Separate mechanisms for the origin of imprinted expression patterns and maintenance of these patterns may result in substantial variation in the targets of imprinting in different species. Here we present deep sequencing of RNAs isolated from reciprocal crosses of four diverse maize genotypes, providing a comprehensive analysis that allows evaluation of imprinting at more than 95% of endosperm-expressed genes. We find that over 500 genes exhibit statistically significant parent-of-origin effects in maize endosperm tissue, but focused our analyses on a subset of these genes that had >90% expression from the maternal allele (69 genes) or from the paternal allele (108 genes) in at least one reciprocal cross. Over 10% of imprinted genes show evidence of allelic variation for imprinting. A comparison of imprinting in maize and rice reveals that 13% of genes with syntenic orthologs in both species exhibit conserved imprinting. Genes that exhibit conserved imprinting between maize and rice have elevated nonsynonymous to synonymous substitution ratios compared with other imprinted genes, suggesting a history of more rapid evolution. Together, these data suggest that imprinting only has functional relevance at a subset of loci that currently exhibit imprinting in maize.
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