ArticleGenetics2008
RNAi of met1 reduces DNA methylation and induces genome-specific changes in gene expression and centromeric small RNA accumulation in Arabidopsis allopolyploids.
Article in Genetics, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 44 papers.
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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.
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Who cites it
44 citing papers in PubMed, 77 citations in OpenAlex.
- Evidence for Paternal Mitochondrial DNA Leakage in Diploid Hybrid Fish Lineages.Animals : an open access journal from MDPI · 2026Article
- The molecular evolutionary basis of species formation revisited.Trends in genetics : TIG · 2025Review
- Insights into the Evolution of Ohnologous Sequences and Their Epigenetic Marks Post-WGD in Malus Domestica.Genome biology and evolution · 2023Article
- Dynamic changes in DNA methylation occur in TE regions and affect cell proliferation during leaf-to-callus transition in Arabidopsis.Epigenetics · 2022Article
- MET1-Dependent DNA Methylation Represses Light Signaling and Influences Plant Regeneration inMolecules and cells · 2021Article
- Genetic and Epigenetic Changes Are Rapid Responses of the Genome to the Newly Synthesized AutotetraploidFrontiers in genetics · 2020Article
- Evidence for the paternal mitochondrial DNA in the crucian carp-like fish lineage with hybrid origin.Science China. Life sciences · 2020Article
- Gene Expression Changes During the Allo-/Deallopolyploidization Process ofFrontiers in genetics · 2019Article
- Integrative analysis of genome-wide lncRNA and mRNA expression in newly synthesizedEcology and evolution · 2018Article
- Epigenetic perspectives on the evolution and domestication of polyploid plant and crops.Current opinion in plant biology · 2018Review
- Impact of transposable elements on polyploid plant genomes.Annals of botany · 2017Review
- Inter-genomic DNA Exchanges and Homeologous Gene Silencing Shaped the Nascent Allopolyploid Coffee Genome (Coffea arabica L.).G3 (Bethesda, Md.) · 2016Article
- Chromosomal distribution of H3K4me2, H3K9me2 and 5-methylcytosine: variations associated with polyploidy and hybridization in Brachiaria (Poaceae).Plant cell reports · 2016Article
- Functional divergence of GhCFE5 homoeologs revealed in cotton fiber and Arabidopsis root cell development.Plant cell reports · 2016Article
- A cotton miRNA is involved in regulation of plant response to salt stress.Scientific reports · 2016Article
- Epigenetic and developmental regulation in plant polyploids.Current opinion in plant biology · 2015Review
- Reference genes for normalizing transcription in diploid and tetraploid Arabidopsis.Scientific reports · 2014Article
- Evolutionary history of Methyltransferase 1 genes in hexaploid wheat.BMC genomics · 2014Article
- Involvement of host regulatory pathways during geminivirus infection: a novel platform for generating durable resistance.Functional & integrative genomics · 2014Review
- Genomic and epigenetic insights into the molecular bases of heterosis.Nature reviews. Genetics · 2013Review
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Authors and funding
5 authors at 3 institutions in 2 countries.
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Abstract
Changes in genome structure and gene expression have been documented in both resynthesized and natural allopolyploids that contain two or more divergent genomes. The underlying mechanisms for rapid and stochastic changes in gene expression are unknown. Arabidopsis suecica is a natural allotetraploid derived from the extant A. thaliana and A. arenosa genomes that are homeologous in the allotetraploid. Here we report that RNAi of met1 reduced DNA methylation and altered the expression of approximately 200 genes, many of which encode transposons, predicted proteins, and centromeric and heterochromatic RNAs. Reduced DNA methylation occurred frequently in promoter regions of the upregulated genes, and an En/Spm-like transposon was reactivated in met1-RNAi A. suecica lines. Derepression of transposons, heterochromatic repeats, and centromeric small RNAs was primarily derived from the A. thaliana genome, and A. arenosa homeologous loci were less affected by methylation defects. A high level of A. thaliana centromeric small RNA accumulation was correlated with hypermethylation of A. thaliana centromeres. The greater effects of reduced DNA methylation on transposons and centromeric repeats in A. thaliana than in A. arenosa are consistent with the repression of many genes that are expressed at higher levels in A. thaliana than in A. arenosa in the resynthesized allotetraploids. Moreover, non-CG (CC) methylation in the promoter region of A. thaliana At2g23810 remained in the resynthesized allotetraploids, and the methylation spread within the promoter region in natural A. suecica, leading to silencing of At2g23810. At2g23810 was demethylated and reactivated in met1-RNAi A. suecica lines. We suggest that many A. thaliana genes are transcriptionally repressed in resynthesized allotetraploids, and a subset of A. thaliana loci including transposons and centromeric repeats are heavily methylated and subjected to homeologous genome-specific RNA-mediated DNA methylation in natural allopolyploids.
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