ArticleGenome biology2019
Population-level analysis reveals the widespread occurrence and phenotypic consequence of DNA methylation variation not tagged by genetic variation in maize.
Article in Genome biology, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 57 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
57 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Multi-omics revolution to promote plant breeding efficiency.Frontiers in plant science · 2022Pooled it
- The dual role of polyethylene glycol-simulated drought stress inPhysiology and molecular biology of plants : an international journal of functional plant biology · 2026Review
- A dual genome-methylome map of clonal evolution in grapevine.Genome biology · 2026Article
- Stem microanatomical phenomic uncovers a potential role for ZmLSM2 in regulating maize stem bending strength.Journal of integrative plant biology · 2026Article
- The landscape of cotton DNA methylation and its epigenetic regulation in Verticillium wilt resistance.Plant cell reports · 2026Article
- Accessing crop genetic diversity via pangenomics.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Review
- Plant domestication revisited: Genomic insights into origins, mechanisms, and convergent evolution.iScience · 2026Review
- Methylome differences among barley inbreds and their association with genomic, transcriptomic, and phenotypic variation.Journal of experimental botany · 2026Article
- Unraveling the genetic and molecular mechanisms of anthocyanin biosynthesis and accumulation in maize kernels.Frontiers in plant science · 2026Review
- Integrated genomic and DNA methylome analyses reveal epigenetic regulation of stevia glycoside biosynthesis inHorticulture research · 2025Article
- Decades' progress and prospects on maize functional genomics and molecular breeding.Science China. Life sciences · 2025Review
- Insights into the genomic divergence of maize heterotic groups in China.Journal of integrative plant biology · 2025Article
- A new climate for genomic and epigenomic innovation in grapevine.Molecular horticulture · 2025Article
- Testing the potential of zebularine to induce heritable changes in crop growth and development.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Article
- Epigenetic gene regulation in plants and its potential applications in crop improvement.Nature reviews. Molecular cell biology · 2025Review
- Article
- Population-wide DNA methylation polymorphisms at single-nucleotide resolution in 207 cotton accessions reveal epigenomic contributions to complex traits.Cell research · 2024Article
- Natural polymorphisms in ZMET2 encoding a DNA methyltransferase modulate the number of husk layers in maize.Plant physiology · 2024Article
- DNA methylation variations underlie lettuce domestication and divergence.Genome biology · 2024Article
- Grafting based DNA methylation alteration of snoRNAs in upland cotton (Physiology and molecular biology of plants : an international journal of functional plant biology · 2024Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
13 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDNA methylation can provide a source of heritable information that is sometimes entirely uncoupled from genetic variation. However, the extent of this uncoupling and the roles of DNA methylation in shaping diversity of both gene expression and phenotypes are hotly debated. Here, we investigate the genetic basis and biological functions of DNA methylation at a population scale in maize.
resultsWe perform targeted DNA methylation profiling for a diverse panel of 263 maize inbred genotypes. All genotypes show similar levels of DNA methylation globally, highlighting the importance of DNA methylation in maize development. Nevertheless, we identify more than 16,000 differentially methylated regions (DMRs) that are distributed across the 10 maize chromosomes. Genome-wide association analysis with high-density genetic markers reveals that over 60% of the DMRs are not tagged by SNPs, suggesting the presence of unique information in DMRs. Strong associations between DMRs and the expression of many genes are identified in both the leaf and kernel tissues, pointing to the biological significance of methylation variation. Association analysis with 986 metabolic traits suggests that DNA methylation is associated with phenotypic variation of 156 traits. There are some traits that only show significant associations with DMRs and not with SNPs.
conclusionsThese results suggest that DNA methylation can provide unique information to explain phenotypic variation in maize.
Indexed as
Identifiers
What OpenQuestion holds
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.