Construction of a high-density, high-resolution genetic map and its integration with BAC-based physical map in channel catfish.

Construction of genetic linkage map is essential for genetic and genomic studies. Recent advances in sequencing and genotyping technologies made it possible to generate high-density and high-resolution genetic linkage maps, especially for the organisms lacking extensive genomic resources. In the present work, we constructed a high-density and high-resolution genetic map for channel catfish with three large resource families genotyped using the catfish 250K single-nucleotide polymorphism (SNP) array. A total of 54,342 SNPs were placed on the linkage map, which to our knowledge had the highest marker density among aquaculture species. The estimated genetic size was 3,505.4 cM with a resolution of 0.22 cM for sex-averaged genetic map. The sex-specific linkage maps spanned a total of 4,495.1 cM in females and 2,593.7 cM in males, presenting a ratio of 1.7 : 1 between female and male in recombination fraction. After integration with the previously established physical map, over 87% of physical map contigs were anchored to the linkage groups that covered a physical length of 867 Mb, accounting for ∼90% of the catfish genome. The integrated map provides a valuable tool for validating and improving the catfish whole-genome assembly and facilitates fine-scale QTL mapping and positional cloning of genes responsible for economically important traits.

Li Y ，Liu S ，Qin Z ，Waldbieser G ，Wang R ，Sun L ，Bao L ，Danzmann RG ，Dunham R ，Liu Z ... -  《-》

A first generation BAC-based physical map of the channel catfish genome.

Quiniou SM ，Waldbieser GC ，Duke MV 《BMC GENOMICS》

Second-generation genetic linkage map of catfish and its integration with the BAC-based physical map.

Ninwichian P ，Peatman E ，Liu H ，Kucuktas H ，Somridhivej B ，Liu S ，Li P ，Jiang Y ，Sha Z ，Kaltenboeck L ，Abernathy JW ，Wang W ，Chen F ，Lee Y ，Wong L ，Wang S ，Lu J ，Liu Z ... -  《G3-Genes Genomes Genetics》

A dense genetic linkage map for common carp and its integration with a BAC-based physical map.

Zhao L ，Zhang Y ，Ji P ，Zhang X ，Zhao Z ，Hou G ，Huo L ，Liu G ，Li C ，Xu P ，Sun X ... -  《PLoS One》

Linkage mapping bovine EST-based SNP.

Snelling WM ，Casas E ，Stone RT ，Keele JW ，Harhay GP ，Bennett GL ，Smith TP ... -  《BMC GENOMICS》