ArticleMolecular genetics and genomics : MGG2010
Alternative splicing in teleost fish genomes: same-species and cross-species analysis and comparisons.
Article in Molecular genetics and genomics : MGG, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 35 papers.
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Who cites it
35 citing papers in PubMed, 83 citations in OpenAlex.
- Full-Length transcriptome assembly and SSR marker development for Spinibarbus hollandi using PacBio SMRT sequencing.Scientific reports · 2026Article
- Ocean acidification induces changes in circadian alternative splicing profiles in a coral reef fish.Scientific reports · 2025Article
- Full-length transcriptome assembly of black amur bream (Megalobrama terminalis) as a reference resource.Molecular biology reports · 2024Article
- Alternative splicing dynamically regulates common carp embryogenesis under thermal stress.BMC genomics · 2024Article
- Genome sequencing and analysis of black flounder (Paralichthys orbignyanus) reveals new insights into Pleuronectiformes genomic size and structure.BMC genomics · 2024Article
- Unveiling the Role of Dynamic Alternative Splicing Modulation After Infestation with Sea Lice (Caligus rogercresseyi) in Atlantic Salmon.Marine biotechnology (New York, N.Y.) · 2023Article
- Genome-wide alternative splicing profile in the posterior kidney of brown trout (Salmo trutta) during proliferative kidney disease.BMC genomics · 2022Article
- The alternative splicing landscape of a coral reef fish during a marine heatwave.Ecology and evolution · 2022Article
- Sulfate homeostasis in Atlantic salmon is associated with differential regulation of salmonid-specific paralogs in gill and kidney.Physiological reports · 2021Article
- Transcriptomic analysis to elucidate the effects of high stocking density on grass carp (Ctenopharyngodon idella).BMC genomics · 2021Article
- The divergence of alternative splicing between ohnologs in teleost fishes.BMC ecology and evolution · 2021Article
- Transcriptome Profiling Reveals the Sexual Dimorphism of Gene Expression Patterns during Gonad Differentiation in the Half-Smooth Tongue Sole (Cynoglossus semilaevis).Marine biotechnology (New York, N.Y.) · 2021Article
- Brain transcriptome analysis reveals subtle effects on mitochondrial function and iron homeostasis of mutations in the SORL1 gene implicated in early onset familial Alzheimer's disease.Molecular brain · 2020Article
- Molecular Identification and Dual Functions of Two Different CXC Chemokines in Nile Tilapia (Microorganisms · 2020Article
- Genome-Wide Characterization of Alternative Splicing Events and Their Responses to Cold Stress in Tilapia.Frontiers in genetics · 2020Article
- Analysis of Chromosomal Numbers, Mitochondrial Genome, and Full-Length Transcriptome of Onychostoma brevibarba.Marine biotechnology (New York, N.Y.) · 2019Article
- The Grass Carp Genomic Visualization Database (GCGVD): an informational platform for genome biology of grass carp.International journal of biological sciences · 2019Article
- Genome-Wide Analysis of Alternative Splicing Provides Insights Into Stress Response of the Pacific White ShrimpFrontiers in genetics · 2019Article
- Increased Alternative Splicing as a Host Response to Edwardsiella ictaluri Infection in Catfish.Marine biotechnology (New York, N.Y.) · 2018Article
- Alternatively spliced variants in Atlantic cod (Gadus morhua) support response to variable salinity environment.Scientific reports · 2018Article
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Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alternative splicing (AS) is a mechanism by which the coding diversity of the genome can be greatly increased. Rates of AS are known to vary according to the complexity of eukaryotic species potentially explaining the tremendous phenotypic diversity among species with similar numbers of coding genes. Little is known, however, about the nature or rate of AS in teleost fish. Here, we report the characteristics of AS in teleost fish and classification and frequency of five canonical AS types. We conducted both same-species and cross-species analysis utilizing the Genome Mapping and Alignment Program (GMAP) and an AS pipeline (ASpipe) to study AS in four genome-enabled species (Danio rerio, Oryzias latipes, Gasterosteus aculeatus, and Takifugu rubripes) and one species lacking a complete genome sequence, Ictalurus punctatus. AS frequency was lowest in the highly duplicated genome of zebrafish (17% of mapped genes). The compact genome of the pufferfish showed the highest occurrence of AS (approximately 43% of mapped genes). An inverse correlation between AS frequency and genome size was consistent across all analyzed species. Cross-species comparisons utilizing zebrafish as the reference genome allowed the identification of additional putative AS genes not revealed by zebrafish transcripts. Approximately, 50% of AS genes identified by same-species comparisons were shared among two or more species. A searchable website, the Teleost Alternative Splicing Database, was created to allow easy identification and visualization of AS transcripts in the studied teleost genomes. Our results and associated database should further our understanding of alternative splicing as an important functional and evolutionary mechanism in the genomes of teleost fish.
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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.