ArticleJournal of molecular evolution2010
Evaluation of models of the mechanisms underlying intron loss and gain in Aspergillus fungi.
Article in Journal of molecular evolution, 2010. 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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27 citing papers in PubMed, 44 citations in OpenAlex.
- 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
- Histone H3 gene is not a suitable marker to distinguish Alternaria tenuissima from A. alternata affecting potato.PloS one · 2020Article
- Genome streamlining via complete loss of introns has occurred multiple times in lichenized fungal mitochondria.Ecology and evolution · 2019Article
- Exosome-mediated horizontal gene transfer occurs in double-strand break repair during genome editing.Communications biology · 2019Article
- Towards a comprehensive picture of C-to-U RNA editing sites in angiosperm mitochondria.Plant molecular biology · 2018Article
- Article
- Localized Retroprocessing as a Model of Intron Loss in the Plant Mitochondrial Genome.Genome biology and evolution · 2016Article
- Article
- Evaluation of the mechanisms of intron loss and gain in the social amoebae Dictyostelium.BMC evolutionary biology · 2015Article
- Intron evolution in Neurospora: the role of mutational bias and selection.Genome research · 2015Article
- Recurrent loss of specific introns during angiosperm evolution.PLoS genetics · 2014Article
- Characterization of newly gained introns in Daphnia populations.Genome biology and evolution · 2014Article
- Origin of spliceosomal introns and alternative splicing.Cold Spring Harbor perspectives in biology · 2014Article
- Article
- Reverse transcriptase and intron number evolution.Stem cell investigation · 2014Article
- Frequency of intron loss correlates with processed pseudogene abundance: a novel strategy to test the reverse transcriptase model of intron loss.BMC biology · 2013Article
- At the origin of spliceosomal introns: Is multiplication of introner-like elements the main mechanism of intron gain in fungi?Communicative & integrative biology · 2013Article
- Article
- Microhomology-mediated intron loss during metazoan evolution.Genome biology and evolution · 2013Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Although intron loss and gain have been widely observed, their mechanisms are still to be determined. In four Aspergillus genomes, we found 204 cases of intron loss and 84 cases of intron gain. Using this data, we tested common hypotheses of intron loss or gain. Statistical analysis showed that adjacent introns tend to be lost simultaneously and small introns were preferentially lost, supporting the model of mRNA-mediated intron loss. The lost introns reside in internal regions of genes, which is inconsistent with the traditional version of the model (partial length cDNAs are reverse transcribed from 3' ends of mRNAs), but consistent with an alternate version (partial length cDNAs are produced by self-primed reverse transcription). The latter version was not supported by examination of the abundance of T-rich segments in mRNAs. Preferential loss of internal introns might be explained by highly efficient recombination at internal regions of genes. Among the 84 cases of intron gain, we found a significantly higher frequency of short direct repeats near exon-intron boundary than in conserved introns, supporting the double-strand break repair model. We also found possible source sequences for two cases of intron gain, one by gene conversion and one by insertion of a mitochondrial sequence during double-strand break repair. Source sequences for most gained introns could not be identified and the possible reasons were discussed. In the four Aspergillus genomes studied, we did not find evidence of frequent parallel intron gains.
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