ArticlePLoS computational biology2007
The (in)dependence of alternative splicing and gene duplication.
Article in PLoS computational biology, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
41 citing papers in PubMed, 79 citations in OpenAlex.
- Maximum lifespan and brain size in mammals are associated with gene family size expansion related to immune system functions.Scientific reports · 2025Article
- Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms.Molecular cell · 2025Article
- Review
- Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms.bioRxiv : the preprint server for biology · 2024Article
- Evolution of isoform-level gene expression patterns across tissues during lotus species divergence.The Plant journal : for cell and molecular biology · 2022Article
- PIC-Me: paralogs and isoforms classifier based on machine-learning approaches.BMC bioinformatics · 2021Article
- The divergence of alternative splicing between ohnologs in teleost fishes.BMC ecology and evolution · 2021Article
- Article
- Changes in Alternative Splicing in Response to Domestication and Polyploidization in Wheat.Plant physiology · 2020Article
- Genome-Wide Identification and Expression Profiles of Myosin Genes in the Pacific White Shrimp,Frontiers in physiology · 2019Article
- Alternative splicing and the evolution of phenotypic novelty.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2017Review
- The Evolutionary Relationship between Alternative Splicing and Gene Duplication.Frontiers in genetics · 2017Review
- OGS2: genome re-annotation of the jewel wasp Nasonia vitripennis.BMC genomics · 2016Article
- Evolution of selenophosphate synthetases: emergence and relocation of function through independent duplications and recurrent subfunctionalization.Genome research · 2015Article
- Evidence for widespread subfunctionalization of splice forms in vertebrate genomes.Genome research · 2015Article
- The evolutionary fate of alternatively spliced homologous exons after gene duplication.Genome biology and evolution · 2015Article
- Gene length and expression level shape genomic novelties.Genome research · 2014Article
- Polyploidy and novelty: Gottlieb's legacy.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2014Review
- Article
- Global dissection of alternative splicing in paleopolyploid soybean.The Plant cell · 2014Article
Corrections and comments
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Authors and funding
5 authors at 4 institutions in 3 countries.
Funding
Abstract
Alternative splicing (AS) and gene duplication (GD) both are processes that diversify the protein repertoire. Recent examples have shown that sequence changes introduced by AS may be comparable to those introduced by GD. In addition, the two processes are inversely correlated at the genomic scale: large gene families are depleted in splice variants and vice versa. All together, these data strongly suggest that both phenomena result in interchangeability between their effects. Here, we tested the extent to which this applies with respect to various protein characteristics. The amounts of AS and GD per gene are anticorrelated even when accounting for different gene functions or degrees of sequence divergence. In contrast, the two processes appear to be independent in their influence on variation in mRNA expression. Further, we conducted a detailed comparison of the effect of sequence changes in both alternative splice variants and gene duplicates on protein structure, in particular the size, location, and types of sequence substitutions and insertions/deletions. We find that, in general, alternative splicing affects protein sequence and structure in a more drastic way than gene duplication and subsequent divergence. Our results reveal an interesting paradox between the anticorrelation of AS and GD at the genomic level, and their impact at the protein level, which shows little or no equivalence in terms of effects on protein sequence, structure, and function. We discuss possible explanations that relate to the order of appearance of AS and GD in a gene family, and to the selection pressure imposed by the environment.
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Registered trials
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.