Development of silver carp (Hypophthalmichthys molitrix) and bighead carp (Aristichthys nobilis) genetic maps using microsatellite and AFLP markers and a pseudo‐testcross strategy

Abstract

Silver carp (Hypophthalmichthys molitrix) and bighead carp (Aristichthys nobilis) are two of the four most important pond-cultured fish species inhabiting the major river basins of China. In the present study, genetic maps of silver carp and bighead carp were constructed using microsatellite and AFLP markers and a two-way pseudo-testcross strategy. To create the maps, 60 individuals were obtained from a cross of a single bighead carp (female) and a single silver carp (male). The silver carp map consisted of 271 markers (48 microsatellites and 223 AFLPs) that were assembled into 27 linkage groups, of which 22 contained at least four markers. The total length of the silver carp map was 952.2 cM, covering 82.8% of the estimated genome size. The bighead carp map consisted of 153 markers (27 microsatellites and 126 AFLPs) which were organized into 30 linkage groups, of which 19 contained at least four markers. The total length of the bighead carp map was 852.0 cM, covering 70.5% of the estimated genome size. Eighteen microsatellite markers were common to both maps. These maps will contribute to discovery of genes and genetic regions controlling traits in the two species of carp.

Comparative transcriptomic analyses of two bighead carp ( Hypophthalmichthys nobilis ) groups with different growth rates

“…In bighead carp, few genetic studies have employed microsatellites in genetic map construction (Liao et al, 2007). We obtained 8342 simple sequence repeat (SSR) markers in 6416 transcripts with MISA (Thiel et al, 2003).…”

QTL fine mapping and identification of candidate genes for growth-related traits in bighead carp ( Hypophthalmichehys nobilis )

“…Hence, it's necessary to deploy MAS program and accelerate the breeding program for bighead carp. Although some genetic and genomic resources have been developed in bighead carp, such as microsatellite markers Guo et al, 2013a;Zhu et al, 2013a), the first and second generation genetic linkage map (Liao et al, 2007;Zhu et al, 2014), microsatellite-centromere mapping and comparative genomics , the genetic architecture of economic traits remains unknown.…”

A second generation genetic linkage map for silver carp (Hypophthalmichehys molitrix) using microsatellite markers

“…However, previous published genetic maps (Liao et al, 2007b;Zhang et al, 2010;Zhang et al, 2011) for silver carp were mainly constructed using AFLPs. Although AFLP markers have many advantages, they are labor-intensive, technically challenging, and their cross-applicability between laboratories can be impeded due to the inherent difficulties associated with the identification of the corresponding AFLP fragment sizes (Cloutier et al, 2011).…”

“…Of the three previously published maps for silver carp, Liao et al (2007b) and Zhang et al (2011) used the same mapping family. Therefore, our present map was mainly compared with two maps published by Zhang et al(2010) and Zhang et al (2011).…”

“…Approximately 600 SSR sequences for silver carp are available in GenBank or other public databases. A few first-generation genetic maps have been previously reported for silver carp, primarily based on AFLP markers and limited number of SSRs, resulting in relatively low resolution and more linkage groups than expected (Liao et al, 2007b;Zhang et al, 2010Zhang et al, , 2011. A well-defined genetic map with co-dominant DNA markers is not available for this species.…”