Inflammatory responses in primary muscle cell cultures in Atlantic salmon (Salmo salar)

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Phylogeny and expression of tetraspanin CD9 paralogues in rainbow trout (Oncorhynchus mykiss)

Open Access via the Elsevier Agreement Acknowledgements This work was funded by BBSRC project BB/R008973/1 and European Union’s Horizon 2020 research and innovation program under grant agreement 817923 (AQUA-FAANG).Peer reviewedPublisher PD

Sampling the fish gill microbiome : a comparison of tissue biopsies and swabs

Funding Information: The research costs of this work were supported by the BBSRC EASTBIO DTP and Marine Alliance for Science and Technology Scotland (MASTS) small grants funding scheme. Acknowledgements The authors would like to thank Scottish Sea Farms (SSF) for the kind facilitation of fieldwork that provided material in this project, particularly the staff at the Loch Spelve facility, and the health team at SSF, particularly Dr. Ralph Bickerdike. Thanks are due as well to Professor Matt Holden and Kerry Pettigrew of the Infection Group within the Biomedical Sciences Research Complex, School of Medicine, University of St Andrews, for assistance within the laboratory, as well as Dr. David Bass at the Centre for Environment Fisheries and Aquaculture Science for helpful proofreading.Peer reviewedPublisher PD

Selenium Supplementation in Fish : A Combined Chemical and Biomolecular Study to Understand Sel-Plex Assimilation and Impact on Selenoproteome Expression in Rainbow Trout (Oncorhynchus mykiss)

Correction Published: February 10, 2016 Acknowledgements This study was supported by Alltech (ZY002 RGF0258) and the Principal’s Interdisciplinary Fund at the University of Aberdeen (award BL900.ROQ0061). Thanks go to the Hellenic Centre for Marine Research, which synthesized all the diets used in this experiment. D.P. carried out the experiment and performed all the molecular biology analysis, interpreted the results and drafted the manuscript. C.J.S and S.A.M.M. supervised the experiment, participating in the experimental design and revision of the manuscript. M.M.L. participated in the sampling and performed all the chemical analysis under the supervision of J.F. Pacitti D, Lawan MM, Sweetman J, Martin SAM, Feldmann J, Secombes CJ (2016) Correction: Selenium Supplementation in Fish: A Combined Chemical and Biomolecular Study to Understand Sel-Plex Assimilation and Impact on Selenoproteome Expression in Rainbow Trout (Oncorhynchus mykiss). PLoS ONE 11(2): e0144681. doi:10.1371/journal.pone.0144681 The unit used to indicate Selenium concentration appears incorrectly throughout the manuscript. The correct unit is mg Kg-1. The values for Selenium concentrations provided as 0.5, 4, and 8 mg Kg-1 throughout the article are incorrect. The correct Selenium concentrations are 0.25, 2, and 4 mg Kg-1 respectively.Peer reviewedPublisher PD

Time is a stronger predictor of microbiome community composition than tissue in external mucosal surfaces of Atlantic salmon (Salmo salar) reared in a semi-natural freshwater environment

Open Access via the Elsevier Agreement This work was supported by the UKRI project ROBUSTSMOLT [grant numbers BBSRC BB/S004270/1 and BB/S004432/1]. There was also co-funding from the Scottish Aquaculture Innovation Centre.Peer reviewedPublisher PD

Transcriptomic response to ISAV infection in the gills, head kidney and spleen of resistant and susceptible Atlantic salmon

Abstract Background Infectious Salmon Anaemia virus (ISAV) is an orthomyxovirus responsible for large losses in Atlantic salmon (Salmo salar) aquaculture. Current available treatments and vaccines are not fully effective, and therefore selective breeding to produce ISAV-resistant strains of Atlantic salmon is a high priority for the industry. Genomic selection and potentially genome editing can be applied to enhance the disease resistance of aquaculture stocks, and both approaches can benefit from increased knowledge on the genomic mechanisms of resistance to ISAV. To improve our understanding of the mechanisms underlying resistance to ISAV in Atlantic salmon we performed a transcriptomic study in ISAV-infected salmon with contrasting levels of resistance to this virus. Results Three different tissues (gills, head kidney and spleen) were collected on 12 resistant and 12 susceptible fish at three timepoints (pre-challenge, 7 and 14 days post challenge) and RNA sequenced. The transcriptomes of infected and non-infected fish and of resistant and susceptible fish were compared at each timepoint. The results show that the responses to ISAV are organ-specific; an important response to the infection was observed in the head kidney, with up-regulation of immune processes such as interferon and NLR pathways, while in gills and spleen the response was more moderate. In addition to immune related genes, our results suggest that other processes such as ubiquitination and ribosomal processing are important during early infection with ISAV. Moreover, the comparison between resistant and susceptible fish has also highlighted some interesting genes related to ubiquitination, intracellular transport and the inflammasome. Conclusions Atlantic salmon infection by ISAV revealed an organ-specific response, implying differential function during the infection. An immune response was observed in the head kidney in these early timepoints, while gills and spleen showed modest responses in comparison. Comparison between resistance and susceptible samples have highlighted genes of interest for further studies, for instance those related to ubiquitination or the inflammasome

Dietary Yeast Cell Wall Extract Alters the Proteome of the Skin Mucous Barrier in Atlantic Salmon (Salmo salar) : Increased Abundance and Expression of a Calreticulin-Like Protein

Funding: This work was supported by a studentship from BioMar Ltd. to GM. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Peer reviewedPublisher PD

Genome-wide reconstruction of rediploidization following autopolyploidization across one hundred million years of salmonid evolution

Acknowledgements: This work was supported by the Biotechnology and Biological Sciences Research Council grant BBS/E/D/10002070 and the Frimedbio program of the Research Council of Norway (grant number 241016). MKG received studentship funding from a University of Aberdeen Elphinstone scholarship with additional support from the Government of Karnataka. We thank Dr Sebastian Beggel, Dr Bernhard C. Stoeckle, Jens-Eike Täuber and Ms Haiyu Ding at the Aquatic Systems Biology Unit, Technical University of Munich for their support in sampling huchen. We thank Dr Torfinn Nome for supporting bioinformatic analyses. We thank Madhusudhan Gundappa (Twitter: @fish_lines) for providing species illustrations in Figure 1. We also thanks Dr Gareth Gillard (Norwegian University of Life Sciences) for support with the RNA-Seq data. The Earlham Institute performed library preparation and sequencing used in the huchen genome assembly.Peer reviewedPublisher PD

Ecological opportunity leads to higher diversity and probability of trophic specialisation in Arctic charr

Understanding the extrinsic factors that drive the emergence of biological diversity is critical to its protection and management. However, even superficially similar local environments can vary considerably, and so large-scale datasets are needed to understand the key drivers across a representative portion of a species distribution. Arctic charr (Salvelinus alpinus) is a widespread salmonid fish that represents an excellent study system for these processes because the species shows substantial diversification to a range of freshwater environments and multiple instances of trophic specialisation in the form of sympatric ecotype populations. However, the processes behind this variation remain largely unknown due to a lack of broad-scale studies. To address this, we investigated the drivers of diversity using a national scale study of 64 Arctic charr populations in lakes across Scotland using a genome-wide dataset of SNPs (N = 24,878) and phenotypic data of head depth relative to body size. We found that the extent of genetic and phenotypic diversity was predicted by ecosystem size (a proxy of lake size, depth and complexity). We suggest this is because larger, deeper lakes generally provided more ecological opportunity and diversification potential. Additionally, using environmental data from all 187 lakes containing Arctic charr in Scotland, we found that ecosystem size strongly predicted the potential for trophic specialisation and the presence of sympatric divergent ecotypes. Our results show the importance of ecological opportunity in underlying adaptive radiations

Single cell transcriptomics of Atlantic salmon (Salmo salar L.) liver reveals cellular heterogeneity and immunological responses to challenge by Aeromonas salmonicida

Copyright © 2022 Taylor, Ruiz Daniels, Dobie, Naseer, Clark, Henderson, Boudinot, Martin and Macqueen.Peer reviewedPublisher PD