Genome-wide association analysis reveals loci associated with resistance against Piscirickettsia salmonis in two Atlantic salmon (Salmo salar L.) chromosomes

Katharina Correa, Jean P. Lhorente, María E. López, Liane Bassini, Sudhir Naswa, Nader Deeb, Alex Di Genova, Alejandro Maass, William S. Davidson, José M. Yáñez

Resultado de la investigación: Article

39 Citas (Scopus)

Resumen

Background: Pisciricketssia salmonis is the causal agent of Salmon Rickettsial Syndrome (SRS), which affects salmon species and causes severe economic losses. Selective breeding for disease resistance represents one approach for controlling SRS in farmed Atlantic salmon. Knowledge concerning the architecture of the resistance trait is needed before deciding on the most appropriate approach to enhance artificial selection for P. salmonis resistance in Atlantic salmon. The purpose of the study was to dissect the genetic variation in the resistance to this pathogen in Atlantic salmon. Methods: 2,601 Atlantic salmon smolts were experimentally challenged against P. salmonis by means of intra-peritoneal injection. These smolts were the progeny of 40 sires and 118 dams from a Chilean breeding population. Mortalities were recorded daily and the experiment ended at day 40 post-inoculation. Fish were genotyped using a 50K Affymetrix® Axiom® myDesignTM Single Nucleotide Polymorphism (SNP) Genotyping Array. A Genome Wide Association Analysis was performed on data from the challenged fish. Linear regression and logistic regression models were tested. Results: Genome Wide Association Analysis indicated that resistance to P. salmonis is a moderately polygenic trait. There were five SNPs in chromosomes Ssa01 and Ssa17 significantly associated with the traits analysed. The proportion of the phenotypic variance explained by each marker is small, ranging from 0.007 to 0.045. Candidate genes including interleukin receptors and fucosyltransferase have been found to be physically linked with these genetic markers and may play an important role in the differential immune response against this pathogen. Conclusions: Due to the small amount of variance explained by each significant marker we conclude that genetic resistance to this pathogen can be more efficiently improved with the implementation of genetic evaluations incorporating genotype information from a dense SNP array.

Idioma originalEnglish
Número de artículo854
PublicaciónBMC Genomics
Volumen16
N.º1
DOI
EstadoPublished - 24 oct 2015

Huella dactilar

Piscirickettsia
Salmo salar
Genome-Wide Association Study
Salmon
Chromosomes
Single Nucleotide Polymorphism
Genetic Markers
Fishes
Logistic Models
Interleukin Receptors
Fucosyltransferases
Multifactorial Inheritance
Disease Resistance
Breeding
Linear Models
Genotype
Economics
Injections
Mortality
Population

ASJC Scopus subject areas

  • Biotechnology
  • Genetics

Citar esto

Correa, Katharina ; Lhorente, Jean P. ; López, María E. ; Bassini, Liane ; Naswa, Sudhir ; Deeb, Nader ; Di Genova, Alex ; Maass, Alejandro ; Davidson, William S. ; Yáñez, José M. / Genome-wide association analysis reveals loci associated with resistance against Piscirickettsia salmonis in two Atlantic salmon (Salmo salar L.) chromosomes. En: BMC Genomics. 2015 ; Vol. 16, N.º 1.
@article{f4c41c4281494ddd9e8d575ad47dda47,
title = "Genome-wide association analysis reveals loci associated with resistance against Piscirickettsia salmonis in two Atlantic salmon (Salmo salar L.) chromosomes",
abstract = "Background: Pisciricketssia salmonis is the causal agent of Salmon Rickettsial Syndrome (SRS), which affects salmon species and causes severe economic losses. Selective breeding for disease resistance represents one approach for controlling SRS in farmed Atlantic salmon. Knowledge concerning the architecture of the resistance trait is needed before deciding on the most appropriate approach to enhance artificial selection for P. salmonis resistance in Atlantic salmon. The purpose of the study was to dissect the genetic variation in the resistance to this pathogen in Atlantic salmon. Methods: 2,601 Atlantic salmon smolts were experimentally challenged against P. salmonis by means of intra-peritoneal injection. These smolts were the progeny of 40 sires and 118 dams from a Chilean breeding population. Mortalities were recorded daily and the experiment ended at day 40 post-inoculation. Fish were genotyped using a 50K Affymetrix{\circledR} Axiom{\circledR} myDesignTM Single Nucleotide Polymorphism (SNP) Genotyping Array. A Genome Wide Association Analysis was performed on data from the challenged fish. Linear regression and logistic regression models were tested. Results: Genome Wide Association Analysis indicated that resistance to P. salmonis is a moderately polygenic trait. There were five SNPs in chromosomes Ssa01 and Ssa17 significantly associated with the traits analysed. The proportion of the phenotypic variance explained by each marker is small, ranging from 0.007 to 0.045. Candidate genes including interleukin receptors and fucosyltransferase have been found to be physically linked with these genetic markers and may play an important role in the differential immune response against this pathogen. Conclusions: Due to the small amount of variance explained by each significant marker we conclude that genetic resistance to this pathogen can be more efficiently improved with the implementation of genetic evaluations incorporating genotype information from a dense SNP array.",
keywords = "Atlantic salmon, Genome wide association analysis, Pathogen resistance, Salmon rickettsial syndrome, Single nucleotide polymorphism",
author = "Katharina Correa and Lhorente, {Jean P.} and L{\'o}pez, {Mar{\'i}a E.} and Liane Bassini and Sudhir Naswa and Nader Deeb and {Di Genova}, Alex and Alejandro Maass and Davidson, {William S.} and Y{\'a}{\~n}ez, {Jos{\'e} M.}",
year = "2015",
month = "10",
day = "24",
doi = "10.1186/s12864-015-2038-7",
language = "English",
volume = "16",
journal = "BMC Genomics",
issn = "1471-2164",
publisher = "BioMed Central",
number = "1",

}

Genome-wide association analysis reveals loci associated with resistance against Piscirickettsia salmonis in two Atlantic salmon (Salmo salar L.) chromosomes. / Correa, Katharina; Lhorente, Jean P.; López, María E.; Bassini, Liane; Naswa, Sudhir; Deeb, Nader; Di Genova, Alex; Maass, Alejandro; Davidson, William S.; Yáñez, José M.

En: BMC Genomics, Vol. 16, N.º 1, 854, 24.10.2015.

Resultado de la investigación: Article

TY - JOUR

T1 - Genome-wide association analysis reveals loci associated with resistance against Piscirickettsia salmonis in two Atlantic salmon (Salmo salar L.) chromosomes

AU - Correa, Katharina

AU - Lhorente, Jean P.

AU - López, María E.

AU - Bassini, Liane

AU - Naswa, Sudhir

AU - Deeb, Nader

AU - Di Genova, Alex

AU - Maass, Alejandro

AU - Davidson, William S.

AU - Yáñez, José M.

PY - 2015/10/24

Y1 - 2015/10/24

N2 - Background: Pisciricketssia salmonis is the causal agent of Salmon Rickettsial Syndrome (SRS), which affects salmon species and causes severe economic losses. Selective breeding for disease resistance represents one approach for controlling SRS in farmed Atlantic salmon. Knowledge concerning the architecture of the resistance trait is needed before deciding on the most appropriate approach to enhance artificial selection for P. salmonis resistance in Atlantic salmon. The purpose of the study was to dissect the genetic variation in the resistance to this pathogen in Atlantic salmon. Methods: 2,601 Atlantic salmon smolts were experimentally challenged against P. salmonis by means of intra-peritoneal injection. These smolts were the progeny of 40 sires and 118 dams from a Chilean breeding population. Mortalities were recorded daily and the experiment ended at day 40 post-inoculation. Fish were genotyped using a 50K Affymetrix® Axiom® myDesignTM Single Nucleotide Polymorphism (SNP) Genotyping Array. A Genome Wide Association Analysis was performed on data from the challenged fish. Linear regression and logistic regression models were tested. Results: Genome Wide Association Analysis indicated that resistance to P. salmonis is a moderately polygenic trait. There were five SNPs in chromosomes Ssa01 and Ssa17 significantly associated with the traits analysed. The proportion of the phenotypic variance explained by each marker is small, ranging from 0.007 to 0.045. Candidate genes including interleukin receptors and fucosyltransferase have been found to be physically linked with these genetic markers and may play an important role in the differential immune response against this pathogen. Conclusions: Due to the small amount of variance explained by each significant marker we conclude that genetic resistance to this pathogen can be more efficiently improved with the implementation of genetic evaluations incorporating genotype information from a dense SNP array.

AB - Background: Pisciricketssia salmonis is the causal agent of Salmon Rickettsial Syndrome (SRS), which affects salmon species and causes severe economic losses. Selective breeding for disease resistance represents one approach for controlling SRS in farmed Atlantic salmon. Knowledge concerning the architecture of the resistance trait is needed before deciding on the most appropriate approach to enhance artificial selection for P. salmonis resistance in Atlantic salmon. The purpose of the study was to dissect the genetic variation in the resistance to this pathogen in Atlantic salmon. Methods: 2,601 Atlantic salmon smolts were experimentally challenged against P. salmonis by means of intra-peritoneal injection. These smolts were the progeny of 40 sires and 118 dams from a Chilean breeding population. Mortalities were recorded daily and the experiment ended at day 40 post-inoculation. Fish were genotyped using a 50K Affymetrix® Axiom® myDesignTM Single Nucleotide Polymorphism (SNP) Genotyping Array. A Genome Wide Association Analysis was performed on data from the challenged fish. Linear regression and logistic regression models were tested. Results: Genome Wide Association Analysis indicated that resistance to P. salmonis is a moderately polygenic trait. There were five SNPs in chromosomes Ssa01 and Ssa17 significantly associated with the traits analysed. The proportion of the phenotypic variance explained by each marker is small, ranging from 0.007 to 0.045. Candidate genes including interleukin receptors and fucosyltransferase have been found to be physically linked with these genetic markers and may play an important role in the differential immune response against this pathogen. Conclusions: Due to the small amount of variance explained by each significant marker we conclude that genetic resistance to this pathogen can be more efficiently improved with the implementation of genetic evaluations incorporating genotype information from a dense SNP array.

KW - Atlantic salmon

KW - Genome wide association analysis

KW - Pathogen resistance

KW - Salmon rickettsial syndrome

KW - Single nucleotide polymorphism

UR - http://www.scopus.com/inward/record.url?scp=84945115170&partnerID=8YFLogxK

U2 - 10.1186/s12864-015-2038-7

DO - 10.1186/s12864-015-2038-7

M3 - Article

VL - 16

JO - BMC Genomics

JF - BMC Genomics

SN - 1471-2164

IS - 1

M1 - 854

ER -