scholarly journals Standardized IMGT® Nomenclature of Salmonidae IGH Genes, the Paradigm of Atlantic Salmon and Rainbow Trout: From Genomics to Repertoires

2019 ◽  
Vol 10 ◽  
Author(s):  
Susana Magadan ◽  
Aleksei Krasnov ◽  
Saida Hadi-Saljoqi ◽  
Sergey Afanasyev ◽  
Stanislas Mondot ◽  
...  
2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Pablo Cáceres ◽  
Agustín Barría ◽  
Kris A. Christensen ◽  
Liane N. Bassini ◽  
Katharina Correa ◽  
...  

AbstractSea lice (Caligus rogercresseyi) is an ectoparasite which causes major production losses in the salmon aquaculture industry worldwide. Atlantic salmon (Salmo salar) and rainbow trout (Oncorhynchus mykiss) are two of the most susceptible salmonid species to sea lice infestation. The objectives of this study were to: (1) identify genomic regions associated with resistance to Caligus rogercresseyi in Atlantic salmon and rainbow trout by performing single-step Genome-Wide Association studies (ssGWAS), and (2) identify candidate genes related to trait variation based on exploring orthologous genes within the associated regions across species. A total of 2626 Atlantic salmon and 2643 rainbow trout were challenged and genotyped with 50 K and 57 K SNP panels, respectively. We ran two independent ssGWAS for sea lice resistance on each species and identified 7 and 13 regions explaining more than 1% of the genetic variance for the trait, with the most important regions explaining 3% and 2.7% for Atlantic salmon and rainbow trout, respectively. We identified genes associated with immune response, cytoskeleton function, and cell migration when focusing on important genomic regions for each species. Moreover, we found 15 common orthogroups which were present in more than one associated genomic region, within- or between-species; however, only one orthogroup showed a clear potential biological relevance in the response against sea lice. For instance, dual-specificity protein phosphatase 10-like (dusp10) and dual-specificity protein phosphatase 8 (dusp8) were found in genomic regions associated with lice density in Atlantic salmon and rainbow trout, respectively. Dusp10 and dusp8 are modulators of the MAPK pathway and might be involved in the differences of the inflammation response between lice resistant and susceptible fish from both species. Our results provide further knowledge on candidate genes related to sea lice resistance and may help establish better control for sea lice in fish populations.


1967 ◽  
Vol 24 (7) ◽  
pp. 1507-1513 ◽  
Author(s):  
M. Yaqub Javaid ◽  
John M. Anderson

The selected temperature for Atlantic salmon and rainbow trout, as determined in a horizontal gradient, increases with acclimation temperature over the acclimation range 5–20 C for salmon and 10–20 C for trout. The final preferendum for salmon is about 17 C. The results for rainbow trout suggest that the type of gradient used, i.e. vertical or horizontal, has a marked influence on the experimentally determined relation between acclimation temperature and selected temperature.


2021 ◽  
Vol 12 ◽  
Author(s):  
Alvaro Santibañez ◽  
Diego Paine ◽  
Mick Parra ◽  
Carlos Muñoz ◽  
Natalia Valdes ◽  
...  

Lactic acid bacteria are a powerful vehicle for releasing of cytokines and immunostimulant peptides at the gastrointestinal level after oral administration. However, its therapeutic application against pathogens that affect rainbow trout and Atlantic salmon has been little explored. Type II interferon in Atlantic salmon activates the antiviral response, protecting against viral infection, but its role against bacterial infection has not been tested in vivo. In this work, through the design of a recombinant lactic acid bacterium capable of producing Interferon gamma from Atlantic salmon, we explore its role against bacterial infection and the ability to stimulate systemic immune response after oral administration of the recombinant probiotic. Recombinant interferon was active in vitro, mainly stimulating IL-6 expression in SHK-1 cells. In vivo, oral administration of the recombinant probiotic produced an increase in IL-6, IFNγ and IL-12 in the spleen and kidney, in addition to stimulating the activity of lysozyme in serum. The challenge trials indicated that the administration of the IFNγ-producing probiotic doubled the survival in fish infected with F. psychrophilum. In conclusion, our results showed that the oral administration of lactic acid bacteria producing IFNγ managed to stimulate the immune response at a systemic level, conferring protection against pathogens, showing a biotechnological potential for its application in aquaculture.


2020 ◽  
Author(s):  
Remi L. Gratacap ◽  
Ye Hwa Jin ◽  
Marina Mantsopoulou ◽  
Ross D. Houston

AbstractInfectious and parasitic diseases have major negative economic and animal welfare impacts on aquaculture of salmonid species. Improved knowledge of the functional basis of host response and genetic resistance to these diseases is key to developing preventative and treatment options. Cell lines provide a valuable model to study infectious diseases in salmonids, and genome editing using CRISPR provides an exciting avenue to evaluate the function of specific genes in those systems. While CRISPR/Cas9 has been successfully performed in a Chinook salmon cell line (CHSE-214), there are no reports to date of editing of cell lines derived from the most commercially relevant salmonid species Atlantic salmon and rainbow trout, which are difficult to transduce and therefore edit using lentivirus-mediated methods. In the current study, a method of genome editing of salmonid cell lines using ribonucleoprotein (RNP) complexes was optimised and tested in the most commonly-used salmonid fish cell lines; Atlantic salmon (SHK-1 and ASK cell lines), rainbow trout (RTG-2) and Chinook salmon (CHSE-214). Electroporation of RNP based on either Cas9 or Cas12a was efficient at targeted editing of all the tested lines (typically > 90 % cells edited), and the choice of enzyme expands the number of potential target sites for editing within the genomes of these species. These optimised protocols will facilitate functional genetic studies in salmonid cell lines, which are widely used as model systems for infectious diseases in aquaculture.


2005 ◽  
Vol 14 (13) ◽  
pp. 4193-4203 ◽  
Author(s):  
CHRISTIAN T. SMITH ◽  
CARITA M. ELFSTROM ◽  
LISA W. SEEB ◽  
JAMES E. SEEB

2018 ◽  
Vol 75 (11) ◽  
pp. 1949-1959
Author(s):  
Scott D. Roloson ◽  
Kyle M. Knysh ◽  
Michael R.S. Coffin ◽  
Karen L. Gormley ◽  
Christina C. Pater ◽  
...  

The purpose of this study was to update rainbow trout (Oncorhynchus mykiss) invasion status, delineate factors that increase the invasion probability, and quantify habitat overlap between invasive rainbow trout and native Atlantic salmon (Salmo salar) and brook trout (Salvelinus fontinalis) on Prince Edward Island, Canada. Analysis of landscape-level variables in 26 watersheds (14 with and 12 without rainbow trout) demonstrated that watershed slope, percent agricultural land use, and distance to the nearest rainbow trout population significantly increased the probability of rainbow trout establishment. Two independent reach-level fish community surveys were conducted by electrofishing in combination with habitat surveys. Reaches with rainbow trout had higher stream slope, Atlantic salmon were found in wider reaches with larger substrate, and brook trout were typically dominant in headwater reaches with finer substrate. Findings at multiple ecological scales illustrated that rainbow trout invasion success is positively influenced by the presence of high-slope habitat. Habitat separation of the three salmonid species indicates that competition with introduced rainbow trout may not be the most significant threat to native salmonid populations.


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