Genetic co-variation between resistance against both Caligus rogercresseyi and Piscirickettsia salmonis, and body weight in Atlantic salmon (Salmo salar)

Yáñez, José M.; Lhorente, Jean Paul; Bassini, Liane N.; Oyarzún, Marcela; Neira, Roberto; Newman, Scott

doi:10.1016/j.aquaculture.2014.06.026

Cited by 89 publications

(73 citation statements)

References 17 publications

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“…The Farmed A and B populations belong to two different year‐classes from a breeding nucleus established in 1997 in Puerto Montt, Chile, aimed at improving growth‐related traits and more recently disease resistance traits (Yáñez et al . , ; Correa et al . ).…”

Section: Methodsmentioning

confidence: 99%

“…The Farmed A, B and C populations derived from Mowi-Fanad strain (Farmed D) (Norris et al 1999) and were introduced to Chile for aquaculture purposes during the 1990s (Solar 2009). The Farmed A and B populations belong to two different year-classes from a breeding nucleus established in 1997 in Puerto Montt, Chile, aimed at improving growth-related traits and more recently disease resistance traits (Y añez et al 2013, 2014bCorrea et al 2015). The Farmed C population belongs to the broodstock from an Atlantic salmon farm located in the XII Region, Chile, which has been improved for growth for about three generations using phenotypic selection.…”

Section: Snp Validationmentioning

confidence: 99%

See 1 more Smart Citation

Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations

Yáñez

Naswa

López

et al. 2016

Molecular Ecology Resources

113

104

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A considerable number of single nucleotide polymorphisms (SNPs) are required to elucidate genotype-phenotype associations and determine the molecular basis of important traits. In this work, we carried out de novo SNP discovery accounting for both genome duplication and genetic variation from American and European salmon populations. A total of 9 736 473 nonredundant SNPs were identified across a set of 20 fish by whole-genome sequencing. After applying six bioinformatic filtering steps, 200 K SNPs were selected to develop an Affymetrix Axiom(®) myDesign Custom Array. This array was used to genotype 480 fish representing wild and farmed salmon from Europe, North America and Chile. A total of 159 099 (79.6%) SNPs were validated as high quality based on clustering properties. A total of 151 509 validated SNPs showed a unique position in the genome. When comparing these SNPs against 238 572 markers currently available in two other Atlantic salmon arrays, only 4.6% of the SNP overlapped with the panel developed in this study. This novel high-density SNP panel will be very useful for the dissection of economically and ecologically relevant traits, enhancing breeding programmes through genomic selection as well as supporting genetic studies in both wild and farmed populations of Atlantic salmon using high-resolution genomewide information.

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Section: Methodsmentioning

confidence: 99%

Section: Snp Validationmentioning

confidence: 99%

Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations

Yáñez

Naswa

López

et al. 2016

Molecular Ecology Resources

113

104

View full text Add to dashboard Cite

show abstract

“…In the latter generation, resistance against Piscirickettsia salmonis was included into the breeding goal. The phenotypes were measured on sibs of the selection candidates by means of a challenge test performed as described by Yáñez, Bangera, Lhorente, Oyarzún and Neira (), and the trait was defined as day of death (Yáñez et al., ). The genetic evaluation was carried out using a bivariate animal model, including the contemporary group of sex:cage:year and age at harvest, and tank and weight at the end of test as fixed effects for weight at harvest and resistance to P. salmonis respectively (Yáñez et al., ).…”

Section: Methodsmentioning

confidence: 99%

Mate selection in aquaculture breeding using differential evolution algorithm

et al. 2017

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An algorithm to perform mate selection in aquaculture breeding using a computational optimization procedure called “differential evolution” (DE) was applied under optimum contribution selection and mate selection scenarios, to assess its efficiency in maximizing the genetic merit while controlling inbreeding. Real aquaculture data sets with 8,782 Nile tilapias from five generations and 79,144 coho salmon from eight generations were used to optimize objective functions accounting for coancestry of parents and expected genetic merit and inbreeding of the future progeny. The mate selection results were compared with those from the realized scenario (real mates), truncation selection and optimum contribution selection method. Mate selection allowed reducing inbreeding up to 73% for Nile tilapia, compared with truncation selection, and up to 20% for coho salmon, compared with realized scenario. There was evidence that mate selection outperformed optimum contribution selection followed by minimum inbreeding mating in controlling inbreeding under the same expected genetic gain. The developed algorithm was computationally efficient in maximizing the objective functions and flexible for practical application in aquaculture breeding.

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“…A study in Atlantic salmon determined a favourable genetic correlation (−0.32 ± 0.14) between resistance to Caligus rogercresseyi and body weight, indicating that selection for increased body weight will result in a lower parasite count (Yáñez et al . 2014a). In the same population however, there were no significant genetic correlations between resistance to Piscirickettsia salmonis and body weight or between resistance to P. salmonis and C. rogercresseyi (Yáñez et al .…”

Section: Genetic Parameters and Response To Selectionmentioning

confidence: 99%

“…In the same population however, there were no significant genetic correlations between resistance to Piscirickettsia salmonis and body weight or between resistance to P. salmonis and C. rogercresseyi (Yáñez et al . 2014a). In coho salmon, the presence of a moderately unfavourable genetic correlation (−0.50 ± 0.13) between time to death due to P. salmonis infection and weight at harvest was found (Yáñez et al .…”

Section: Genetic Parameters and Response To Selectionmentioning

confidence: 99%

Advances in genetic improvement for salmon and trout aquaculture: the Chilean situation and prospects

Lhorente

Araneda

Neira

et al. 2019

Reviews in Aquaculture

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Genetic improvement is key to the development of a more efficient aquaculture industry. By 2010, there were 104 breeding programmes for aquaculture species in the world, most of them for fish species. Usually, the breeding goals include traits such as growth rate, disease resistance, maturation and carcass quality. Resistance to specific pathogens has been one of the main objectives of research and development in the genetic improvement programmes of salmonids in Chile and worldwide. In Chile, trait selection has been conducted through the application of selection indexes. New technologies like next generation sequencing and genotyping have helped disentangle the genetic basis and enhance genetic evaluation methods of economically important traits. This work aims to review the advances in genetic improvement for salmon and trout aquaculture with emphasis on the Chilean experience. We focus on the implementation of breeding programmes in the country, definition of breeding objectives, results on genetic parameters and response to selection and incorporation of genomics. Future challenges and opportunities regarding genotype‐by‐environment interactions, climate change and research and development, plus the demonstration of the economic benefit of breeding programmes are also addressed.

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Genetic co-variation between resistance against both Caligus rogercresseyi and Piscirickettsia salmonis, and body weight in Atlantic salmon (Salmo salar)

Cited by 89 publications

References 17 publications

Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations

Genomewide single nucleotide polymorphism discovery in Atlantic salmon (Salmo salar): validation in wild and farmed American and European populations

Mate selection in aquaculture breeding using differential evolution algorithm

Advances in genetic improvement for salmon and trout aquaculture: the Chilean situation and prospects

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