title: High-Density Genetic Mapping with Interspecific Hybrids of Two Sea Urchins, Strongylocentrotus nudus and S. intermedius, by RAD Sequencing.
abstract: Sea urchins have long been used as research model organisms for developmental biology and evolutionary studies. Some of them are also important aquaculture species in East Asia. In this work, we report the construction of RAD-tag based high-density genetic maps by genotyping F1 interspecific hybrids derived from a crossing between a female sea urchin Strongylocentrotus nudus and a male Strongylocentrotus intermedius. With polymorphisms present in these two wild individuals, we constructed a female meiotic map containing 3,080 markers for S. nudus, and a male meiotic map for S. intermedius which contains 1,577 markers. Using the linkage maps, we were able to anchor a total of 1,591 scaffolds (495.9 Mb) accounting for 60.8% of the genome assembly of Strongylocentrotus purpuratus. A genome-wide scan resulted in the identification of one putative QTL for body size which spanned from 25.3 cM to 30.3 cM. This study showed the efficiency of RAD-Seq based high-density genetic map construction using F1 progenies for species with no prior genomic information. The genetic maps are essential for QTL mapping and are useful as framework to order and orientate contiguous scaffolds from sea urchin genome assembly. The integration of the genetic map with genome assembly would provide an unprecedented opportunity to conduct QTL analysis, comparative genomics, and population genetics studies.
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Zunchun
authors.initials: Z
authors.lastname: Zhou
authors.affiliation: The Fish Molecular Genetics and Biotechnology Laboratory, Aquatic Genomics Unit, School of Fisheries, Aquaculture and Aquatic Sciences and Program of Cell and Molecular Biosciences, Auburn University, Auburn, AL, 36849, United States of America.
authors.forename: Shikai
authors.initials: S
authors.lastname: Liu
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Ying
authors.initials: Y
authors.lastname: Dong
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Shan
authors.initials: S
authors.lastname: Gao
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Zhong
authors.initials: Z
authors.lastname: Chen
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Jingwei
authors.initials: J
authors.lastname: Jiang
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Aifu
authors.initials: A
authors.lastname: Yang
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Hongjuan
authors.initials: H
authors.lastname: Sun
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Xiaoyan
authors.initials: X
authors.lastname: Guan
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Bei
authors.initials: B
authors.lastname: Jiang
authors.affiliation: Liaoning Key Lab of Marine Fishery Molecular Biology, Liaoning Ocean and Fisheries Science Research Institute, Dalian, Liaoning, 116023, China.
authors.forename: Bai
authors.initials: B
authors.lastname: Wang
mesh_terms: D000818:Animals; D002874:Chromosome Mapping; D005260:Female; D005819:Genetic Markers; D016678:Genome; D060005:Genotyping Techniques; D006824:Hybridization, Genetic; D008126:Lod Score; D008297:Male; D020641:Polymorphism, Single Nucleotide / Q000235:genetics; D040641:Quantitative Trait Loci / Q000235:genetics; D015183:Restriction Mapping; D017422:Sequence Analysis, DNA / Q000379:methods*; D013045:Species Specificity; D047269:Strongylocentrotus / Q000235:genetics*
chemical_list: D005819:Genetic Markers