First High-Density Linkage Map and Single Nucleotide Polymorphisms Significantly Associated With Traits of Economic Importance in Yellowtail Kingfish Seriola lalandi

Nguyen Hong Nguyen; Pasi M A Rastas; H K A Premachandra; Wayne R Knibb

doi:10.3389/fgene.2018.00127

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First High-Density Linkage Map and Single Nucleotide Polymorphisms Significantly Associated With Traits of Economic Importance in Yellowtail Kingfish Seriola lalandi

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First High-Density Linkage Map and Single Nucleotide Polymorphisms Significantly Associated With Traits of Economic Importance in Yellowtail Kingfish Seriola lalandi

Nguyen Hong Nguyen, Pasi M A Rastas, H K A Premachandra and Wayne R Knibb

Frontiers in Genetics, Vol.9, 127

2018

DOI: https://doi.org/10.3389/fgene.2018.00127

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Abstract

genotyping by sequencing

GWAS

aquaculture

gene identification

genetic improvement

The genetic resources available for the commercially important fish species Yellowtail kingfish (Seriola lalandi) are relative sparse. To overcome this, we aimed 1) to develop a linkage map for this species, and 2) to identify markers/variants associated with economically important traits in kingfish (with an emphasis on body weight). Genetic and genomic analyses were conducted using 13,898 Single Nucleotide Polymorphism (SNPs) generated from a new high through-put genotyping by sequencing platform, Diversity Arrays Technology (DArTseqâ„¢) in a pedigreed population comprising 752 animals. The linkage analysis enabled to map about 4,000 markers to 24 linkage groups (LG), with an average density of 3.4 SNPs per cM. The linkage map was integrated into a genome-wide association study (GWAS) and identified six variants/SNPs associated with body weight (P& 5e-5) when a multi-locus mixed model was used. Two out of the six significant markers were mapped to linkage groups 17 and 23, and collectively they explained 5.8% of the total genetic variance. It is concluded that the newly developed linkage map and the significantly associated markers with body weight provide fundamental information to characterise genetic architecture of growth-related traits in this population of yellowtail kingfish S. lalandi.

Details

Title: First High-Density Linkage Map and Single Nucleotide Polymorphisms Significantly Associated With Traits of Economic Importance in Yellowtail Kingfish Seriola lalandi
Authors: Nguyen Hong Nguyen (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Pasi M A Rastas (Author) - University of Helsinki, Finland
H K A Premachandra (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Wayne R Knibb (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and Engineering
Publication details: Frontiers in Genetics, Vol.9, 127; 11
Publisher: Frontiers Research Foundation
Date published: 2018
DOI: 10.3389/fgene.2018.00127
ISSN: 1664-8021
Copyright note: Copyright © 2018 Nguyen, Rastas, Premachandra and Knibb. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
Organisation Unit: School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; School of Science, Technology and Engineering; Centre for Bioinnovation
Language: English
Record Identifier: 99450726102621
Output Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Web Of Science research areas: Genetics & Heredity