ArticleMarine biotechnology (New York, N.Y.)2012
Exploring the transcriptome of Atlantic salmon (Salmo salar) skin, a major defense organ.
Article in Marine biotechnology (New York, N.Y.), 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
What it found
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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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it, 73 citations in OpenAlex.
- Transcriptomic landscape of Atlantic salmon (Salmo salar L.) skin.G3 (Bethesda, Md.) · 2023Pooled it
- Heritability of Immunity Traits and Resistance of Atlantic Salmon against the Sea LouseBiology · 2023Article
- Integrated Analysis of lncRNA and circRNA Mediated ceRNA Regulatory Networks in Skin Reveals Innate Immunity Differences Between Wild-Type and Yellow Mutant Rainbow Trout (Frontiers in immunology · 2022Article
- Elucidating bacterial adhesion to mucosal surface by an original AFM approach.BMC microbiology · 2021Article
- Stress Impairs Skin Barrier Function and Induces α2-3 LinkedInternational journal of molecular sciences · 2021Article
- Effect of dietary isoleucine on skin mucus barrier and epithelial physical barrier functions of hybrid bagrid catfish Pelteobagrus vachelli × Leiocassis longirostris.Fish physiology and biochemistry · 2020Article
- Transcription profiles of skin and head kidney from goldfish suffering hemorrhagic septicemia with an emphasis on the TLR signaling pathway.Zoological research · 2019Article
- Comparative skin transcriptome of two Oujiang color common carp (Cyprinus carpio var. color) varieties.Fish physiology and biochemistry · 2019Article
- Article
- Gene expression analysis of Atlantic salmon gills reveals mucin 5 and interleukin 4/13 as key molecules during amoebic gill disease.Scientific reports · 2018Article
- Mucus-Pathogen Interactions in the Gastrointestinal Tract of Farmed Animals.Microorganisms · 2018Review
- Low incubation temperature during early development negatively affects survival and related innate immune processes in zebrafish larvae exposed to lipopolysaccharide.Scientific reports · 2018Article
- The Change of Teleost Skin Commensal Microbiota Is Associated With Skin Mucosal Transcriptomic Responses During Parasitic Infection byFrontiers in immunology · 2018Article
- Aeromonas salmonicida Growth in Response to Atlantic Salmon Mucins Differs between Epithelial Sites, Is Governed by Sialylated andInfection and immunity · 2017Article
- Complexities of gene expression patterns in natural populations of an extremophile fish (Poecilia mexicana, Poeciliidae).Molecular ecology · 2017Article
- Article
- Genome-wide analysis of Atlantic salmon (Salmo salar) mucin genes and their role as biomarkers.PloS one · 2017Article
- Article
- De Novo Assembly and Characterization of Early Embryonic Transcriptome of the Horseshoe Crab Tachypleus tridentatus.PloS one · 2016Article
- Effect of temperature and diet on wound healing in Atlantic salmon (Salmo salar L.).Fish physiology and biochemistry · 2015Article
Corrections and comments
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Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
Abstract
The skin of fish is the first line of defense against pathogens and parasites. The skin transcriptome of the Atlantic salmon is poorly characterized, and currently only 2,089 expressed sequence tags (ESTs) out of a total of half a million sequences are generated from skin-derived cDNA libraries. The primary aim of this study was to enhance the transcriptomic knowledge of salmon skin by using next-generation sequencing (NGS) technology, namely the Roche-454 platform. An equimolar mixture of high-quality RNA from skin and epidermal samples of salmon reared in either freshwater or seawater was used for 454-sequencing. This technique yielded over 600,000 reads, which were assembled into 34,696 isotigs using Newbler. Of these isotigs, 12 % had not been sequenced in Atlantic salmon, hence representing previously unreported salmon mRNAs that can potentially be skin-specific. Many full-length genes have been acquired, representing numerous biological processes. Mucin proteins are the main structural component of mucus and we examined in greater detail the sequences we obtained for these genes. Several isotigs exhibited homology to mammalian mucins (MUC2, MUC5AC and MUC5B). Mucin mRNAs are generally >10 kbp and contain large repetitive units, which pose a challenge towards full-length sequence discovery. To date, we have not unearthed any full-length salmon mucin genes with this dataset, but have both N- and C-terminal regions of a mucin type 5. This highlights the fact that, while NGS is indeed a formidable tool for sequence data mining of non-model species, it must be complemented with additional experimental and bioinformatic work to characterize some mRNA sequences with complex features.
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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.