title: Genetic linkage map of medaka with polymerase chain reaction length polymorphisms.
abstract: With recent improvements in genetic and genomic infrastructures, great interest has been taken in genetic dissection of multi-factorial traits. A genetic map consisting of markers that are highly polymorphic and rapidly genotyped is essential for the genetic mapping of such a complex trait. Medaka, Oryzias latipes, is an excellent model system for genetic studies. To promote genetic mapping of complex traits in medaka we developed the first high-throughput and genome-wide marker set in the organism by using its genomic information and the bioinformatic techniques. We tested 545 primer pairs and obtained 265 co-dominant markers between two inbred strains, HNI and Hd-rR. Our map, consisting of 231 uniquely mapped markers, covers 1257.3 centimorgan (cM) of the medaka genome with an average interval distance of 5.4 cM. Furthermore, the newly designed markers were examined for polymorphisms among six medaka inbred strains: HNI, Hd-rR and four additional strains. Most of our markers are simple sequence length polymorphisms (SSLPs) and can be rapidly genotyped by an automated system under a single polymerase chain reaction (PCR) condition. Together with the genotyping data of six medaka inbred strains, our new marker set provides a powerful tool for genome-wide analysis of complex biological phenomena found widely in medaka populations.
authors.affiliation: Department of Molecular Life Science, Course of Basic Medical Science and Molecular Medicine, Tokai University School of Medicine, Kanagawa 259-1193, Japan.
authors.forename: Tetsuaki
authors.initials: T
authors.lastname: Kimura
authors.forename: Keiko
authors.initials: K
authors.lastname: Yoshida
authors.forename: Atsuko
authors.initials: A
authors.lastname: Shimada
authors.forename: Tomoko
authors.initials: T
authors.lastname: Jindo
authors.forename: Mitsuru
authors.initials: M
authors.lastname: Sakaizumi
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Mitani
authors.forename: Kiyoshi
authors.initials: K
authors.lastname: Naruse
authors.forename: Hiroyuki
authors.initials: H
authors.lastname: Takeda
authors.forename: Hidetoshi
authors.initials: H
authors.lastname: Inoko
authors.forename: Gen
authors.initials: G
authors.lastname: Tamiya
authors.forename: Minori
authors.initials: M
authors.lastname: Shinya
mesh_terms: D000818:Animals; D017931:DNA Primers; D008040:Genetic Linkage; D005838:Genotype; D009990:Oryzias / Q000235:genetics*; D016133:Polymerase Chain Reaction / Q000379:methods*; D012150:Polymorphism, Restriction Fragment Length
chemical_list: D017931:DNA Primers