ArticleProceedings of the National Academy of Sciences of the United States of America2008
Alternative splicing: a missing piece in the puzzle of intron gain.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2008. 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, 44 citations in OpenAlex.
- Loss-of-function of VrMYB104 in Mungbean hampers growth and multiple adaptive responses under waterlogging stress.Plant cell reports · 2025Article
- Discovering Intron Gain Events in Humans Through Large-Scale Evolutionary Comparisons.Genome biology and evolution · 2025Article
- De Novo Creation of Two Novel Spliceosomal Introns of RECG1 by Intronization of Formerly Exonic Sequences in Orchidaceae.Journal of molecular evolution · 2025Article
- Genome-Wide Identification, Characterization, and Expression Analysis of the MYB-R2R3 Gene Family in Black Pepper (International journal of molecular sciences · 2024Article
- Jasmonate ZIM Domain Protein (Plants (Basel, Switzerland) · 2024Article
- Article
- The Shift in Synonymous Codon Usage Reveals Similar Genomic Variation during Domestication of Asian and African Rice.International journal of molecular sciences · 2022Article
- Alteration of synonymous codon usage bias accompanies polyploidization in wheat.Frontiers in genetics · 2022Article
- Genome-Wide Identification, Characterization and Expression Analysis of the JAZ Gene Family in Resistance to Gray Leaf Spots in Tomato.International journal of molecular sciences · 2021Article
- Is there any intron sliding in mammals?BMC evolutionary biology · 2020Article
- Review
- A mechanism for a single nucleotide intron shift.Nucleic acids research · 2017Article
- Evolution of the 3R-MYB Gene Family in Plants.Genome biology and evolution · 2017Article
- Splice Sites Seldom Slide: Intron Evolution in Oomycetes.Genome biology and evolution · 2016Article
- Trichinella pseudospiralis vs. T. spiralis thymidylate synthase gene structure and T. pseudospiralis thymidylate synthase retrogene sequence.Parasites & vectors · 2014Article
- Synonymous codon usage bias is correlative to intron number and shows disequilibrium among exons in plants.BMC genomics · 2013Article
- Identifying the mechanisms of intron gain: progress and trends.Biology direct · 2012Review
- Origin and evolution of spliceosomal introns.Biology direct · 2012Review
- Mechanisms of intron gain and loss in Drosophila.BMC evolutionary biology · 2011Article
- Expression of a constitutively active calcineurin encoded by an intron-retaining mRNA in follicular keratinocytes.PloS one · 2011Article
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Authors and funding
3 authors at 1 institution in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spliceosomal introns, a hallmark of eukaryotic gene organization, were an unexpected discovery. After three decades, crucial issues such as when and how introns first appeared in evolution remain unsettled. An issue yet to be answered is how intron positions arise de novo. Phylogenetic investigations concur that intron positions continue to emerge, at least in some lineages. Yet genomic scans for the sources of introns occupying new positions have been fruitless. Two alternative solutions to this paradox are: (i) formation of new intron positions halted before the recent past and (ii) it continues to occur, but through processes different from those generally assumed. One process generally dismissed is intron sliding--the relocation of a preexisting intron over short distances--because of supposed associated deleterious effects. The puzzle of intron gain arises owing to a pervasive operational definition of introns, which sees them as precisely demarcated segments of the genome separated from the neighboring nonintronic DNA by unmovable limits. Intron homology is defined as position homology. Recent studies of pre-mRNA processing indicate that this assumption needs to be revised. We incorporate recent advances on the evolutionarily frequent process of alternative splicing, by which exons of primary transcripts are spliced in different patterns, into a new model of intron sliding that accounts for the diversity of intron positions. We posit that intron positional diversity is driven by two overlapping processes: (i) background process of continuous relocation of preexisting introns by sliding and (ii) spurts of extensive gain/loss of new intron sequences.
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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.