ArticleThe Journal of heredity2016
Identification of Multiple QTL Hotspots in Sockeye Salmon (Oncorhynchus nerka) Using Genotyping-by-Sequencing and a Dense Linkage Map.
Article in The Journal of heredity, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Article
- Complex and Dynamic Gene-by-Age and Gene-by-Environment Interactions Underlie Functional Morphological Variation in Adaptive Divergence in Arctic Charr (Salvelinus alpinus).Evolution & development · 2025Article
- Differences in gene expression between high and low tolerance rainbow trout (Oncorhynchus mykiss) to acute thermal stress.PloS one · 2025Article
- Article
- Dissection of quantitative trait loci in the Lachancea waltii yeast species highlights major hotspots.G3 (Bethesda, Md.) · 2021Article
- A high-density SNP-based genetic map and several economic traits-related loci in Pelteobagrus vachelli.BMC genomics · 2020Article
- Power of a dual-use SNP panel for pedigree reconstruction and population assignment.Ecology and evolution · 2020Article
- Comparative Genomic Analyses and a Novel Linkage Map for Cisco (G3 (Bethesda, Md.) · 2020Article
- Mapping of Adaptive Traits Enabled by a High-Density Linkage Map for Lake Trout.G3 (Bethesda, Md.) · 2020Article
- The sockeye salmon genome, transcriptome, and analyses identifying population defining regions of the genome.PloS one · 2020Article
- Sex-dependent dominance maintains migration supergene in rainbow trout.Nature ecology & evolution · 2019Article
- Mapping of Quantitative Trait Loci for Growth and Carcass-Related Traits in Chickens Using a Restriction-Site Associated DNA Sequencing Method.The journal of poultry science · 2019Article
- Applications of genotyping by sequencing in aquaculture breeding and genetics.Reviews in aquaculture · 2018Review
- Using Linkage Maps as a Tool To Determine Patterns of Chromosome Synteny in the GenusG3 (Bethesda, Md.) · 2017Article
- Significant Synteny and Colocalization of Ecologically Relevant Quantitative Trait Loci Within and Across Species of Salmonid Fishes.Genetics · 2017Article
- Genomic Changes Associated with Reproductive and Migratory Ecotypes in Sockeye Salmon (Oncorhynchus nerka).Genome biology and evolution · 2017Article
- Sex Chromosome Evolution, Heterochiasmy, and Physiological QTL in the Salmonid Brook CharrG3 (Bethesda, Md.) · 2017Article
- A Dense Brown Trout (G3 (Bethesda, Md.) · 2017Article
- A SNP Based Linkage Map of the Arctic Charr (G3 (Bethesda, Md.) · 2017Article
- Salmonid Chromosome Evolution as Revealed by a Novel Method for Comparing RADseq Linkage Maps.Genome biology and evolution · 2016Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Understanding the genetic architecture of phenotypic traits can provide important information about the mechanisms and genomic regions involved in local adaptation and speciation. Here, we used genotyping-by-sequencing and a combination of previously published and newly generated data to construct sex-specific linkage maps for sockeye salmon (Oncorhynchus nerka). We then used the denser female linkage map to conduct quantitative trait locus (QTL) analysis for 4 phenotypic traits in 3 families. The female linkage map consisted of 6322 loci distributed across 29 linkage groups and was 4082 cM long, and the male map contained 2179 loci found on 28 linkage groups and was 2291 cM long. We found 26 QTL: 6 for thermotolerance, 5 for length, 9 for weight, and 6 for condition factor. QTL were distributed nonrandomly across the genome and were often found in hotspots containing multiple QTL for a variety of phenotypic traits. These hotspots may represent adaptively important regions and are excellent candidates for future research. Comparing our results with studies in other salmonids revealed several regions with overlapping QTL for the same phenotypic trait, indicating these regions may be adaptively important across multiple species. Altogether, our study demonstrates the utility of genomic data for investigating the genetic basis of important phenotypic traits. Additionally, the linkage map created here will enable future research on the genetic basis of phenotypic traits in salmon.
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