ArticleGenome biology2017
Epistatic and allelic interactions control expression of ribosomal RNA gene clusters in Arabidopsis thaliana.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 41 citations in OpenAlex.
- Dynamic evolution and hierarchical regulation of rDNA in polyploid oat.The Plant journal : for cell and molecular biology · 2026Article
- Regulation of Pre-rRNA Processing in Plant: Mechanisms, Plasticity, and Developmental Implications.Plants (Basel, Switzerland) · 2026Review
- The interplay of homology-directed repair pathways in the repair of zebularine-induced DNA-protein crosslinks in Arabidopsis.The Plant journal : for cell and molecular biology · 2024Article
- Transcriptional repression ofPlant direct · 2024Article
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- Sequence and epigenetic landscapes of active and silent nucleolus organizer regions inScience advances · 2023Article
- The chromatin source-sink hypothesis: a shared mode of chromatin-mediated regulations.Development (Cambridge, England) · 2023Article
- Reaching for the off switch in nucleolar dominance.The Plant journal : for cell and molecular biology · 2023Article
- 45S rDNA DiversityPlants (Basel, Switzerland) · 2023Article
- Substantial rDNA copy number reductions alter timing of development and produce variable tissue-specific phenotypes in C. elegans.Genetics · 2023Article
- Pushing the limits of HiFi assemblies reveals centromere diversity between two Arabidopsis thaliana genomes.Nucleic acids research · 2022Article
- Impaired function of rDNA transcription initiation machinery leads to derepression of ribosomal genes with insertions of R2 retrotransposon.Nucleic acids research · 2022Article
- The epigenetic origin of life history transitions in plants and algae.Plant reproduction · 2021Review
- The integrative biology of genetic dominance.Biological reviews of the Cambridge Philosophical Society · 2021Review
- Gradual evolution of allopolyploidy in Arabidopsis suecica.Nature ecology & evolution · 2021Article
- Licorice Germplasm Resources Identification Using DNA Barcodes Inner-Variants.Plants (Basel, Switzerland) · 2021Article
- Sequencing of the Arabidopsis NOR2 reveals its distinct organization and tissue-specific rRNA ribosomal variants.Nature communications · 2021Article
- Personal Perspectives on Plant Ribosomal RNA Genes Research: From Precursor-rRNA to Molecular Evolution.Frontiers in plant science · 2021Review
- Targeted Enrichment of rRNA Gene Tandem Arrays for Ultra-Long Sequencing by Selective Restriction Endonuclease Digestion.Frontiers in plant science · 2021Article
- It Is Just a Matter of Time: Balancing Homologous Recombination and Non-homologous End Joining at the rDNA Locus During Meiosis.Frontiers in plant science · 2021Review
Corrections and comments
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Authors and funding
12 authors at 5 institutions in 4 countries.
Funding
Abstract
backgroundRibosomal RNA (rRNA) accounts for the majority of the RNA in eukaryotic cells, and is encoded by hundreds to thousands of nearly identical gene copies, only a subset of which are active at any given time. In Arabidopsis thaliana, 45S rRNA genes are found in two large ribosomal DNA (rDNA) clusters and little is known about the contribution of each to the overall transcription pattern in the species.
resultsBy taking advantage of genome sequencing data from the 1001 Genomes Consortium, we characterize rRNA gene sequence variation within and among accessions. Notably, variation is not restricted to the pre-rRNA sequences removed during processing, but it is also present within the highly conserved ribosomal subunits. Through linkage mapping we assign these variants to a particular rDNA cluster unambiguously and use them as reporters of rDNA cluster-specific expression. We demonstrate that rDNA cluster-usage varies greatly among accessions and that rDNA cluster-specific expression and silencing is controlled via genetic interactions between entire rDNA cluster haplotypes (alleles).
conclusionsWe show that rRNA gene cluster expression is controlled via complex epistatic and allelic interactions between rDNA haplotypes that apparently regulate the entire rRNA gene cluster. Furthermore, the sequence polymorphism we discovered implies that the pool of rRNA in a cell may be heterogeneous, which could have functional consequences.
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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.