ArticleMarine biotechnology (New York, N.Y.)2016
Genome-Wide Analysis of Alternative Splicing Provides Insights into Stress Adaptation of the Pacific Oyster.
Article in Marine biotechnology (New York, N.Y.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 41 citations in OpenAlex.
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- The caspase gene family in Micropterus salmoides: genome-wide characterization, bioinformatics, and expression profiling analysis.BMC genomics · 2026Article
- Prior exposure to hypoxia alters DNA methylation patterns in the eastern oyster.bioRxiv : the preprint server for biology · 2025Article
- Deciphering the genetic basis of sex differentiation in silver-lipped pearl oyster (Zoological research · 2025Article
- Differentially Expressed Genes and Alternative Splicing Analysis Revealed the Difference in Virulence to American Eels (Anguilla rostrata) Infected by Edwardsiella anguillarum and Aeromonas hydrophila.Marine biotechnology (New York, N.Y.) · 2024Article
- A chromosome-level reference genome assembly and a full-length transcriptome assembly of the giant freshwater prawn (Macrobrachium rosenbergii).G3 (Bethesda, Md.) · 2024Article
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- RNA-seq Analysis Reveals Alternative Splicing Under Heat Stress in Rainbow Trout (Oncorhynchus mykiss).Marine biotechnology (New York, N.Y.) · 2022Article
- Alternative splicing is highly variable among Daphnia pulex lineages in response to acute copper exposure.BMC genomics · 2020Article
- Evidence from ileum and liver transcriptomes of resistance to high-salt and water-deprivation conditions in camel.Zoological letters · 2020Article
- Genome-Wide Characterization of Alternative Splicing Events and Their Responses to Cold Stress in Tilapia.Frontiers in genetics · 2020Article
- Adaptive Evolution Patterns in the Pacific Oyster Crassostrea gigas.Marine biotechnology (New York, N.Y.) · 2019Article
- Transcriptome and Gene Coexpression Network Analyses of Two Wild Populations Provides Insight into the High-Salinity Adaptation Mechanisms of Crassostrea ariakensis.Marine biotechnology (New York, N.Y.) · 2019Article
- Genome-Wide Analysis of Alternative Splicing Provides Insights Into Stress Response of the Pacific White ShrimpFrontiers in genetics · 2019Article
- Characterization of Full-Length Transcriptome Sequences and Splice Variants ofFrontiers in genetics · 2019Article
- Effects of cold acclimation and dsRNA injections on Gs1l gene splicing in Drosophila montana.Scientific reports · 2018Article
- Comparative Transcriptome Analysis Reveals Growth-Related Genes in Juvenile Chinese Sea Cucumber, Russian Sea Cucumber, and Their Hybrids.Marine biotechnology (New York, N.Y.) · 2018Article
- A novel and stress adaptive alternative oxidase derived from alternative splicing of duplicated exon in oyster Crassostrea virginica.Scientific reports · 2017Article
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alternative splicing (AS) is thought to enhance transcriptome diversity dramatically and play an important role in stress adaptation. While well studied in vertebrates, AS remains poorly understood in invertebrates. Here, we used high-throughput RNA-sequencing data to perform a genome-wide survey of AS in the Pacific oyster (Crassostrea gigas), an economically important mollusk that is cultivated worldwide. This analysis identified 8223 AS events corresponding to 4480 genes in the Pacific oyster, suggesting that about 16 % of oyster multiexonic genes undergo AS. We observed that a majority of the identified AS events were related to skipped exons (37.8 %). Then Gene Ontology analysis was conducted to analyze the function of the genes that undergo AS and the genes that produce more than five AS isoforms. After that, the expression of AS isoforms facing temperature, salinity, and air exposure challenge were examined. To validate our bioinformatic-predicted results and examine whether AS affects stress adaptation, we selected heat-shock protein 60 (HSP60) and HSP90 genes, both of which experience AS, for reverse transcription PCR (RT-PCR). We also performed quantitative real-time PCR (qRT-PCR) to determine the relative expression of each AS isoform among different stress adapted populations. Our study indicates that AS events are likely complex in the Pacific oyster and may be related to stress adaptation. These results will complement the predicted gene database of C. gigas and provide an invaluable resource for future functional genomic studies on molluscs.
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