ArticleBMC genomics2011
A high-resolution linkage map for comparative genome analysis and QTL fine mapping in Asian seabass, Lates calcarifer.
Article in BMC genomics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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54 citing papers in PubMed, 110 citations in OpenAlex.
- Construction of High-Density Genetic Map and Identification of a Bruchid Resistance Locus in Mung Bean (Frontiers in genetics · 2022Article
- Toward Genome-Based Selection in Asian Seabass: What Can We Learn From Other Food Fishes and Farm Animals?Frontiers in genetics · 2021Review
- Construction of a High-Density Genetic Linkage Map and QTL Mapping for Growth-Related Traits in Takifugu bimaculatus.Marine biotechnology (New York, N.Y.) · 2020Article
- Article
- High-Density Linkage Map and Mapping for Sex and Growth-Related Traits of Largemouth Bass (Frontiers in genetics · 2019Article
- Chromosome-Level Assembly of the Chinese Seabass (Frontiers in genetics · 2019Article
- A high-density genetic linkage map and QTL mapping for growth and sex of yellow drum (Nibea albiflora).Scientific reports · 2018Article
- B Chromosomes of the Asian Seabass (Genes · 2018Article
- Identification of novel genes significantly affecting growth in catfish through GWAS analysis.Molecular genetics and genomics : MGG · 2018Article
- Quantitative trait loci mapping for feed conversion efficiency in crucian carp (Carassius auratus).Scientific reports · 2017Article
- QTL Mapping for Resistance to Iridovirus in Asian Seabass Using Genotyping-by-Sequencing.Marine biotechnology (New York, N.Y.) · 2017Article
- Construction of a high-density linkage map and mapping of sex determination and growth-related loci in the mandarin fish (Siniperca chuatsi).BMC genomics · 2017Article
- Genome-Wide Association Study Identifies Loci Associated with Resistance to Viral Nervous Necrosis Disease in Asian Seabass.Marine biotechnology (New York, N.Y.) · 2017Article
- Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum.Scientific reports · 2017Article
- Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research.BMC genomics · 2017Review
- Development of a 690 K SNP array in catfish and its application for genetic mapping and validation of the reference genome sequence.Scientific reports · 2017Article
- Construction of high-resolution recombination maps in Asian seabass.BMC genomics · 2017Article
- BAC-pool sequencing and analysis confirms growth-associated QTLs in the Asian seabass genome.Scientific reports · 2016Article
- Fine mapping QTL for resistance to VNN disease using a high-density linkage map in Asian seabass.Scientific reports · 2016Article
- A high-density genetic map and growth related QTL mapping in bighead carp (Hypophthalmichthys nobilis).Scientific reports · 2016Article
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundHigh density linkage maps are essential for comparative analysis of synteny, fine mapping of quantitative trait loci (QTL), searching for candidate genes and facilitating genome sequence assembly. However, in most foodfish species, marker density is still low. We previously reported a first generation linkage map with 240 DNA markers and its application to preliminarily map QTL for growth traits in Asian seabass (Lates calcarifer). Here, we report a high-resolution linkage map with 790 microsatellites and SNPs, comparative analysis of synteny, fine-mapping of QTL and the identification of potential candidate genes for growth traits.
resultsA second generation linkage map of Asian seabass was developed with 790 microsatellite and SNP markers. The map spanned a genetic length of 2411.5 cM, with an average intermarker distance of 3.4 cM or 1.1 Mb. This high density map allowed for comparison of the map with Tetraodon nigroviridis genome, which revealed 16 synteny regions between the two species. Moreover, by employing this map we refined QTL to regions of 1.4 and 0.2 cM (or 400 and 50 kb) in linkage groups 2 and 3 in a population containing 380 progeny; potential candidate genes for growth traits in QTL regions were further identified using comparative genome analysis, whose effects on growth traits were investigated. Interestingly, a QTL cluster at Lca371 underlying growth traits of Asian seabass showed similarity to the cathepsin D gene of human, which is related to cancer and Alzheimer's disease.
conclusionsWe constructed a high resolution linkage map, carried out comparative mapping, refined the positions of QTL, identified candidate genes for growth traits and analyzed their effects on growth. Our study developed a framework that will be indispensable for further identification of genes and analysis of molecular variation within the refined QTL to enhance understanding of the molecular basis of growth and speed up genetic improvement of growth performance, and it also provides critical resource for future genome sequence assembly and comparative genomics studies on the evolution of fish genomes.
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