title: A genetic linkage map and comparative genome analysis of common carp (Cyprinus carpio L.) using microsatellites and SNPs.
abstract: A genetic linkage map is a powerful research tool for mapping traits of interest and is essential to understanding genome evolution. The aim of this study is to provide an expanded genetic linkage map of common carp to effectively carry out quantitative trait loci analysis and conduct comparative mapping analysis between lineages. Here, we constructed a genetic linkage map of common carp (Cyprinus carpio L.) using microsatellite and single-nucleotide polymorphism (SNP) markers in a 159 sibling family. A total of 246 microsatellites and 306 SNP polymorphic markers were genotyped in this family. Linkage analysis using JoinMap 4.0 organized 427 markers (186 microsatellites and 241 SNPs) to 50 linkage groups, ranging in size from 1.4 to 130.1 cM. Each group contained 2-30 markers. The linkage map covered a genetic distance of 2,039.2 cM and the average interval for markers within the linkage groups was approximately 6.4 cM. In addition, comparative genome analysis within five model teleost fish revealed a high percentage (74.7%) of conserved loci corresponding to zebrafish chromosomes. In most cases, each zebrafish chromosome comprised two common carp linkage groups. The comparative analysis also revealed independent chromosome rearrangements in common carp and zebrafish. The linkage map will be of great assistance in mapping genes of interest and serve as a reference to approach comparative mapping and enable further insights into the comprehensive investigations of genome evolution of common carp.
authors.affiliation: Heilongjiang River Fisheries Research Institute, Chinese Academy of Fishery Sciences, No 43 Songfa Road, Daoli District, Harbin 150070, Heilongjiang, China.
authors.forename: Xianhu
authors.initials: X
authors.lastname: Zheng
authors.forename: Youyi
authors.initials: Y
authors.lastname: Kuang
authors.forename: Xiaofeng
authors.initials: X
authors.lastname: Zhang
authors.forename: Cuiyun
authors.initials: C
authors.lastname: Lu
authors.forename: Dingchen
authors.initials: D
authors.lastname: Cao
authors.forename: Chao
authors.initials: C
authors.lastname: Li
authors.forename: Xiaowen
authors.initials: X
authors.lastname: Sun
mesh_terms: D000818:Animals; D001483:Base Sequence; D002347:Carps / Q000235:genetics*; D002874:Chromosome Mapping; D017931:DNA Primers / Q000235:genetics; D019143:Evolution, Molecular; D005260:Female; D005819:Genetic Markers; D008297:Male; D018895:Microsatellite Repeats; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci; D013045:Species Specificity; D015027:Zebrafish / Q000235:genetics
chemical_list: D017931:DNA Primers; D005819:Genetic Markers