PUBLICATION
A consensus linkage map of the grass carp (Ctenopharyngodon idella) based on microsatellites and SNPs
- Authors
- Xia, J.H., Liu, F., Zhu, Z.Y., Fu, J., Feng, J., Li, J., and Yue, G.H.
- ID
- ZDB-PUB-100302-8
- Date
- 2010
- Source
- BMC Genomics 11: 135 (Journal)
- Registered Authors
- Yue, Gen Hua
- Keywords
- none
- MeSH Terms
-
- Animals
- Carps/genetics*
- Chromosome Mapping/methods*
- Comparative Genomic Hybridization
- Female
- Genomic Library
- Genotype
- Male
- Microsatellite Repeats*
- Polymorphism, Single Nucleotide*
- Quantitative Trait Loci
- Sequence Analysis, DNA
- Synteny
- Zebrafish/genetics
- PubMed
- 20181260 Full text @ BMC Genomics
Citation
Xia, J.H., Liu, F., Zhu, Z.Y., Fu, J., Feng, J., Li, J., and Yue, G.H. (2010) A consensus linkage map of the grass carp (Ctenopharyngodon idella) based on microsatellites and SNPs. BMC Genomics. 11:135.
Abstract
BACKGROUND: Grass carp (Ctenopharyngodon idella) belongs to the family Cyprinidae which includes more than 2000 fish species. It is one of the most important freshwater food fish species in world aquaculture. A linkage map is an essential framework for mapping traits of interest and is often the first step towards understanding genome evolution. The aim of this study is to construct a first generation genetic map of grass carp using microsatellites and SNPs to generate a new resource for mapping QTL for economically important traits and to conduct a comparative mapping analysis to shed new insights into the evolution of fish genomes. RESULTS: We constructed a first generation linkage map of grass carp with a mapping panel containing two F1 families including 192 progenies. Sixteen SNPs in genes and 263 microsatellite markers were mapped to twenty-four linkage groups (LGs). The number of LGs was corresponding to the haploid chromosome number of grass carp. The sex-specific map was 1149.4 and 888.8 cM long in females and males respectively whereas the sex-averaged map spanned 1176.1 cM. The average resolution of the map was 4.2 cM/locus. BLAST searches of sequences of mapped markers of grass carp against the whole genome sequence of zebrafish revealed substantial macrosynteny relationship and extensive colinearity of markers between grass carp and zebrafish. CONCLUSIONS: The linkage map of grass carp presented here is the first linkage map of a food fish species based on co-dominant markers in the family Cyprinidae. This map provides a valuable resource for mapping phenotypic variations and serves as a reference to approach comparative genomics and understand the evolution of fish genomes and could be complementary to grass carp genome sequencing project.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping