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Genome-Wide Marker Analysis for Traits of Economic Importance in Asian Seabass Lates calcarifer428.96 kB
Published VersionCC BY V4.0, Open Access
Journal article
Genome-Wide Marker Analysis for Traits of Economic Importance in Asian Seabass Lates calcarifer
Journal of Marine Science and Engineering, Vol.9(3), pp.1-9
2021
Abstract
To date, it is not known whether animal breeding values in Asian seabass (Lates calcarifer) can be estimated using single nucleotide polymorphisms (SNPs) generated from new high-throughput genotyping by sequencing platforms. The principal aim of the present study was to assess the genomic prediction accuracy for growth traits, survival, cannibalism, and disease resistance against Streptococcus iniae in this species L. calcarifer. Additionally, this study attempted to identify markers associated with the five traits studied as well as to understand if the genotype data can be used to estimate genetic parameters for these complex traits. The genomic best linear unbiased prediction (gBLUP) method was used to analyze 11,084 SNPs and showed that the prediction accuracies for growth traits (weight and length) were high (0.67–0.75). By contrast, these estimates for survival were low (0.25). Multi-locus mixed model analyses identified four SNPs significantly associated with body weight (p < 5 × 10−8 or −log10 p ≥ 5). There were, however, no significant associations detected for other traits. Similarly, the SNP heritability was moderate, while the estimates for other traits were approximated to zero and not significant. Genetic correlations between body weight and standard length were close to unity. Collectively, the results obtained from this study suggest that genotyping by sequencing platforms can provide informative DNA markers to conduct genome-wide association analysis, estimation of genetic parameters, and evaluation of genomic prediction accuracy for complex traits in Asian seabass.
Details
- Title
- Genome-Wide Marker Analysis for Traits of Economic Importance in Asian Seabass Lates calcarifer
- Authors
- Nguyen Hong Nguyen (Author) - University of the Sunshine Coast, Queensland, School of Science, Technology and EngineeringPham Van Khang (Author) - University of the Sunshine Coast, Queensland, School of Science, Technology and Engineering
- Publication details
- Journal of Marine Science and Engineering, Vol.9(3), pp.1-9
- Publisher
- MDPI AG
- Date published
- 2021
- DOI
- 10.3390/jmse9030282
- ISSN
- 2077-1312
- Copyright note
- Copyright: © 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
- Organisation Unit
- School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99518608802621
- Output Type
- Journal article
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- Web Of Science research areas
- Engineering, Marine
- Engineering, Ocean
- Oceanography
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