ArticlePlant molecular biology2016
Variation of 45S rDNA intergenic spacers in Arabidopsis thaliana.
Article in Plant molecular biology, 2016. 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, 39 citations in OpenAlex.
- Ribosome Heterogeneity in Plants: The Causes of This Phenomenon and Its Implications on Gene Expression.Plants (Basel, Switzerland) · 2026Review
- Regulation of Pre-rRNA Processing in Plant: Mechanisms, Plasticity, and Developmental Implications.Plants (Basel, Switzerland) · 2026Review
- Extensive nrDNA Polymorphism inPlants (Basel, Switzerland) · 2025Article
- Transcriptional Silencing of 35S rDNA inInternational journal of molecular sciences · 2024Article
- The Dynamic Interplay Between Ribosomal DNA and Transposable Elements: A Perspective From Genomics and Cytogenetics.Molecular biology and evolution · 2024Article
- Sequence and epigenetic landscapes of active and silent nucleolus organizer regions inScience advances · 2023Article
- 45S rDNA DiversityPlants (Basel, Switzerland) · 2023Article
- Ribosomal Intergenic Spacers Are Filled with Transposon Remnants.Genome biology and evolution · 2023Article
- The Role of Repetitive Sequences in Repatterning of Major Ribosomal DNA Clusters in Lepidoptera.Genome biology and evolution · 2023Article
- Article
- Chromosomal dynamics inFrontiers in plant science · 2023Article
- The Divergence of Chromosome Structures and 45S Ribosomal DNA Organization inPlants (Basel, Switzerland) · 2022Article
- First discovered, long out of sight, finally visible: ribosomal DNA.Trends in genetics : TIG · 2022Review
- Licorice Germplasm Resources Identification Using DNA Barcodes Inner-Variants.Plants (Basel, Switzerland) · 2021Article
- Subgenome Discrimination inCells · 2021Article
- Comparative FISH analysis of Senna tora tandem repeats revealed insights into the chromosome dynamics in Senna.Genes & genomics · 2021Article
- The rDNA Loci-Intersections of Replication, Transcription, and Repair Pathways.International journal of molecular sciences · 2021Review
- 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
- Chromosomal Mapping of Tandem Repeats Revealed Massive Chromosomal Rearrangements and Insights IntoFrontiers in plant science · 2021Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Approximately seven hundred 45S rRNA genes (rDNA) in the Arabidopsis thaliana genome are organised in two 4 Mbp-long arrays of tandem repeats arranged in head-to-tail fashion separated by an intergenic spacer (IGS). These arrays make up 5 % of the A. thaliana genome. IGS are rapidly evolving sequences and frequent rearrangements inside the rDNA loci have generated considerable interspecific and even intra-individual variability which allows to distinguish among otherwise highly conserved rRNA genes. The IGS has not been comprehensively described despite its potential importance in regulation of rDNA transcription and replication. Here we describe the detailed sequence variation in the complete IGS of A. thaliana WT plants and provide the reference/consensus IGS sequence, as well as genomic DNA analysis. We further investigate mutants dysfunctional in chromatin assembly factor-1 (CAF-1) (fas1 and fas2 mutants), which are known to have a reduced number of rDNA copies, and plant lines with restored CAF-1 function (segregated from a fas1xfas2 genetic background) showing major rDNA rearrangements. The systematic rDNA loss in CAF-1 mutants leads to the decreased variability of the IGS and to the occurrence of distinct IGS variants. We present for the first time a comprehensive and representative set of complete IGS sequences, obtained by conventional cloning and by Pacific Biosciences sequencing. Our data expands the knowledge of the A. thaliana IGS sequence arrangement and variability, which has not been available in full and in detail until now. This is also the first study combining IGS sequencing data with RFLP analysis of genomic DNA.
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