ArticleBMC research notes2011
Incomplete homogenization of 18 S ribosomal DNA coding regions in Arabidopsis thaliana.
Article in BMC research notes, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Sequencing of the Arabidopsis NOR2 reveals its distinct organization and tissue-specific rRNA ribosomal variants.Nature communications · 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
- Age-Dependent and Tissue-Specific Alterations in the rDNA Clusters of theBiomolecules · 2020Article
- Evolutionary trends in animal ribosomal DNA loci: introduction to a new online database.Chromosoma · 2018Article
- Nucleolar Dominance in a Tetraploidy Hybrid Lineage Derived FromFrontiers in genetics · 2018Article
- Evidence of non-tandemly repeated rDNAs and their intragenomic heterogeneity inCommunications biology · 2018Article
- Article
- Haplotype Detection from Next-Generation Sequencing in High-Ploidy-Level Species: 45S rDNA Gene Copies in the Hexaploid Spartina maritima.G3 (Bethesda, Md.) · 2015Article
- The translation initiation factor eIF3i up-regulates vascular endothelial growth factor A, accelerates cell proliferation, and promotes angiogenesis in embryonic development and tumorigenesis.The Journal of biological chemistry · 2014Article
- RAPD, SCAR and conserved 18S rDNA markers for a red-listed and endemic medicinal plant species, Knema andamanica (Myristicaceae).Physiology and molecular biology of plants : an international journal of functional plant biology · 2013Article
- Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in Nicotiana diploids.BMC genomics · 2012Article
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Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAs a result of concerted evolution, coding regions of ribosomal DNA sequences are highly conserved within species and variation is generally thought to be limited to a few nucleotides. However, rDNA sequence variation has not been systematically examined in plant genomes, including that of the model plant Arabidopsis thaliana whose genome was the first to be sequenced.
findingsBoth genomic and transcribed 18 S sequences were sampled and revealed that most deviation from the consensus sequence was limited to single nucleotide substitutions except for a variant with a 270 bp deletion from position 456 to 725 in Arabidopsis numbering. The deletion maps to the functionally important and highly conserved 530 loop or helix18 in the structure of E. coli 16 S. The expression of the deletion variant is tightly controlled during developmental growth stages. Transcripts were not detectable in young seedlings but could be amplified from RNA extracts of mature leaves, stems, flowers and roots of Arabidopsis thaliana ecotype Columbia. We also show polymorphism for the deletion variant among four Arabidopsis ecotypes examined.
conclusionDespite a strong purifying selection that might be expected against functionally impaired rDNAs, the newly identified variant is maintained in the Arabidopsis genome. The expression of the variant and the polymorphism displayed by Arabidopsis ecotypes suggest a transition state in concerted evolution.
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