ArticleBiology direct2007
Protecting exons from deleterious R-loops: a potential advantage of having introns.
Article in Biology direct, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- FERONIA homologs in stress responses of horticultural plants: current knowledge and missing links.Stress biology · 2024Review
- Exon Elongation Added Intrinsically Disordered Regions to the Encoded Proteins and Facilitated the Emergence of the Last Eukaryotic Common Ancestor.Molecular biology and evolution · 2023Article
- Transposable elements drive intron gain in diverse eukaryotes.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Intron losses and gains in the nematodes.Biology direct · 2022Article
- Analysis of Fungal Genomes Reveals Commonalities of Intron Gain or Loss and Functions in Intron-Poor Species.Molecular biology and evolution · 2021Article
- Conservation in first introns is positively associated with the number of exons within genes and the presence of regulatory epigenetic signals.BMC genomics · 2014Article
- Reverse transcriptase and intron number evolution.Stem cell investigation · 2014Article
- Association of intron loss with high mutation rate in Arabidopsis: implications for genome size evolution.Genome biology and evolution · 2013Article
- Gene expression levels are correlated with synonymous codon usage, amino acid composition, and gene architecture in the red flour beetle, Tribolium castaneum.Molecular biology and evolution · 2012Article
- Why eukaryotic cells use introns to enhance gene expression: splicing reduces transcription-associated mutagenesis by inhibiting topoisomerase I cutting activity.Biology direct · 2011Article
- DNA double-strand break repair and the evolution of intron density.Trends in genetics : TIG · 2011Article
- Evaluation of models of the mechanisms underlying intron loss and gain in Aspergillus fungi.Journal of molecular evolution · 2010Article
- Molecular diversity of antimicrobial effectors in the oyster Crassostrea gigas.BMC evolutionary biology · 2010Article
- Genome-wide functional analysis of human 5' untranslated region introns.Genome biology · 2010Article
- An overview of the introns-first theory.Journal of molecular evolution · 2009Article
- Exon definition as a potential negative force against intron losses in evolution.Biology direct · 2008Article
- Survey of group I and group II introns in 29 sequenced genomes of the Bacillus cereus group: insights into their spread and evolution.Nucleic acids research · 2008Article
- Evidence against the energetic cost hypothesis for the short introns in highly expressed genes.BMC evolutionary biology · 2008Article
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Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundAccumulating evidence indicates that the nascent RNA can invade and pair with one strand of DNA, forming an R-loop structure that threatens the stability of the genome. In addition, the cost and benefit of introns are still in debate.
resultsAt least three factors are likely required for the R-loop formation: 1) sequence complementarity between the nascent RNA and the target DNA, 2) spatial juxtaposition between the nascent RNA and the template DNA, and 3) accessibility of the template DNA and the nascent RNA. The removal of introns from pre-mRNA reduces the complementarity between RNA and the template DNA and avoids the spatial juxtaposition between the nascent RNA and the template DNA. In addition, the secondary structures of group I and group II introns may act as spatial obstacles for the formation of R-loops between nearby exons and the genomic DNA.
conclusionOrganisms may benefit from introns by avoiding deleterious R-loops. The potential contribution of this benefit in driving intron evolution is discussed. I propose that additional RNA polymerases may inhibit R-loop formation between preceding nascent RNA and the template DNA. This idea leads to a testable prediction: intermittently transcribed genes and genes with frequently prolonged transcription should have higher intron density.
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