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Sea urchin (Strongylocentrotus intermedius) has long been a model species for developmental and evolutionary research, but only a few studies have focused on gene mapping. Here, we reported a high-density genetic map containing 4,387 polymorphism specific-length amplified fragment (SLAF) markers spanning 21 linkage groups (LG) for sea urchin. Based on this genetic map and phenotyping data for eight economic traits, 33 potentially significant QTLs were detected on ten different LGs with explanations ranging from 9.90% to 46.30%, partly including 10 QTLs for test diameter, six QTLs for body weight and eight QTLs for Aristotle''s lantern weight. Moreover, we found a QTL enrichment LG, LG15, gathering QTLs for test diameter, body weight, gonad weight, light orange-yellow color difference (≥E1) and light yellow color difference (≥E2). Among all QTLs, we genotyped four QTLs for test diameter, Aristotle''s lantern weight and body weight using High Resolution Melting (HRM) technology. Finally, we used the verified SNP marker (detected using SLAF sequencing) to explore their marker-assisted selection (MAS) breeding application potential and found that SNP-29 associated tightly with body weight and that heterozygous genotype was a dominant genotype, indicating that SNP-29 was a promising marker for MAS.
Figure 1. Segregation pattern of polymorphic SLAF markers.
Figure 2. Frequency distributions of eight traits.
Figure 3. QTL analysis of different traits in different LGs. Blue line and red line represent LOD score and explained phenotypic variation of QTL, respectively.
Arthofer,
Rapid and cost-effective screening of newly identified microsatellite loci by high-resolution melting analysis.
2011, Pubmed
Arthofer,
Rapid and cost-effective screening of newly identified microsatellite loci by high-resolution melting analysis.
2011,
Pubmed
Bai,
Construction of a high-density genetic map and QTL mapping for pearl quality-related traits in Hyriopsis cumingii.
2016,
Pubmed
Gardner,
A highly recombined, high-density, eight-founder wheat MAGIC map reveals extensive segregation distortion and genomic locations of introgression segments.
2016,
Pubmed
Kai,
Integration of the genetic map and genome assembly of fugu facilitates insights into distinct features of genome evolution in teleosts and mammals.
2011,
Pubmed
Kai,
A ddRAD-based genetic map and its integration with the genome assembly of Japanese eel (Anguilla japonica) provides insights into genome evolution after the teleost-specific genome duplication.
2014,
Pubmed
Kent,
BLAT--the BLAST-like alignment tool.
2002,
Pubmed
Launey,
High genetic load in the Pacific oyster Crassostrea gigas.
2001,
Pubmed
Le Bras,
Detection of QTL with effects on osmoregulation capacities in the rainbow trout (Oncorhynchus mykiss).
2011,
Pubmed
Li,
Genetic mapping and QTL analysis of growth-related traits in Pinctada fucata using restriction-site associated DNA sequencing.
2014,
Pubmed
Liu,
Construction and analysis of high-density linkage map using high-throughput sequencing data.
2014,
Pubmed
Liu,
Construction of the first high-density genetic linkage map of Salvia miltiorrhiza using specific length amplified fragment (SLAF) sequencing.
2016,
Pubmed
Luo,
Construction of a High-Density Genetic Map Based on Large-Scale Marker Development in Mango Using Specific-Locus Amplified Fragment Sequencing (SLAF-seq).
2016,
Pubmed
Ma,
Genomic structure analysis of a set of Oryza nivara introgression lines and identification of yield-associated QTLs using whole-genome resequencing.
2016,
Pubmed
Plough,
Genetic inviability is a major driver of type III survivorship in experimental families of a highly fecund marine bivalve.
2016,
Pubmed
Reid,
QTL for body weight and condition factor in Atlantic salmon (Salmo salar): comparative analysis with rainbow trout (Oncorhynchus mykiss) and Arctic charr (Salvelinus alpinus).
2005,
Pubmed
Sakamoto,
A microsatellite linkage map of rainbow trout (Oncorhynchus mykiss) characterized by large sex-specific differences in recombination rates.
2000,
Pubmed
Shan,
Construction of a high-density genetic map and mapping of a sex-linked locus for the brown alga Undaria pinnatifida (Phaeophyceae) based on large scale marker development by specific length amplified fragment (SLAF) sequencing.
2015,
Pubmed
Singer,
Sex-specific recombination rates in zebrafish (Danio rerio).
2002,
Pubmed
Sodergren,
The genome of the sea urchin Strongylocentrotus purpuratus.
2006,
Pubmed
,
Echinobase
Sun,
SLAF-seq: an efficient method of large-scale de novo SNP discovery and genotyping using high-throughput sequencing.
2013,
Pubmed
Tian,
Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Sea Cucumber Apostichopus japonicus.
2015,
Pubmed
,
Echinobase
Tuberosa,
Mapping QTLs regulating morpho-physiological traits and yield: case studies, shortcomings and perspectives in drought-stressed maize.
2002,
Pubmed
Wang,
High-density genetic linkage mapping in turbot (Scophthalmus maximus L.) based on SNP markers and major sex- and growth-related regions detection.
2015,
Pubmed
Wittwer,
High-resolution DNA melting analysis: advancements and limitations.
2009,
Pubmed
Wu,
High resolution melting analysis of almond SNPs derived from ESTs.
2008,
Pubmed
Xu,
Construction of a dense genetic linkage map and mapping quantitative trait loci for economic traits of a doubled haploid population of Pyropia haitanensis (Bangiales, Rhodophyta).
2015,
Pubmed
Xu,
Pinpointing genes underlying the quantitative trait loci for root-knot nematode resistance in palaeopolyploid soybean by whole genome resequencing.
2013,
Pubmed
Yu,
Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei.
2015,
Pubmed
Zhang,
High-density SNP-based genetic map for Odontobutis potamophila.
2017,
Pubmed
Zhou,
High-Density Genetic Mapping with Interspecific Hybrids of Two Sea Urchins, Strongylocentrotus nudus and S. intermedius, by RAD Sequencing.
2015,
Pubmed
,
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