Single linkage group per chromosome genetic linkage map for the horse, based on two three-generation, full-sibling, crossbred horse reference families

Abstract

A genetic linkage map of the horse consisting of 742 markers, which comprises a single linkage group for each of the autosomes and the X chromosome, is presented. The map has been generated from two three-generation full-sibling reference families, sired by the same stallion, in which there are 61 individuals in the F2 generation. Each linkage group has been assigned to a chromosome and oriented with reference to markers mapped by fluorescence in situ hybridization. The average interval between markers is 3.7 cM and the linkage groups collectively span 2772 cM. The 742 markers comprise 734 microsatellite and 8 gene-based markers. The utility of the microsatellite markers for comparative mapping has been significantly enhanced by comparing their flanking sequences with the human genome sequence; this enabled conserved segments between human and horse to be identified. The new map provides a valuable resource for genetically mapping traits of interest in the horse.

Characterization of a Minimal Microsatellite Set for Whole Genome Scans Informative in Warmblood and Coldblood Horse Breeds

“…When comparing the positions of the microsatellites in the MSSH with the positions of the markers in the linkage map of Swinburne et al (2006), the order of the markers on most chromosomes was consistent with the annotation on the horse genome assembly EquCab2.0. Marker order had been switched between TKY601 and COR020 on chromosome 10.…”

“…At the NCBI nucleotide database (http://www.ncbi.nlm.nih.gov/), 24 124 equine microsatellites are available since July 2009 (queries on 8/19/2009). The MSSH was developed using microsatellites from the HORSEMAP homepage, the linkage maps of Swinburne et al (2006), Penedo et al (2005), and Tozaki et al (2004Tozaki et al ( , 2007 and the RH maps of Chowdhary et al (2003) and Raudsepp et al (2008). For all of these markers their physical location on the horse genome assembly EquCab2.0 was determined using BLASTlike alignment tool (BLAT) and an e-value of 10 À5 as threshold.…”

“…The comprehensive linkage maps reported by Swinburne et al (2006) and Penedo et al (2005), Tozaki et al (2004Tozaki et al ( , 2007 and the radiation hybrid (RH) maps of Chowdhary et al (2003) and Raudsepp et al (2008) have provided diverse sets of microsatellite markers.…”

A Domestic cat X Chromosome Linkage Map and the Sex-LinkedorangeLocus: Mapping oforange, Multiple Origins and Epistasis Overnonagouti

“…The most distal cat marker is located at megabase 139.7, ,0.3 Mb from the end of the current cat X sequence assembly. The total genetic length of the cat X chromosome is larger than that reported in other mammals [34 cM in the silver fox (covering two-thirds of the X chromosome; Kukekova et al 2007), 65 cM in the horse (Swinburne et al 2006), 71 cM in the mouse (Shifman et al 2006), 78 cM in the rat (Bihoreau et al 2001), 121 cM in the sheep (Maddox et al 2001), 147 cM in the cow (Ihara et al 2004), and 195 cM in humans (Matise et al 2007)]. Additionally, some of the older maps may underestimate the size if they do not cover the entirety of the X chromosome.…”

Refinement of a quantitative gene locus on equine chromosome 16 responsible for osteochondrosis in Hanoverian warmblood horses

“…The former whole genome scan was performed with relative marker positions in cM taken from Swinburne et al (2006) and Penedo et al (2005). The release of the horse genome has made it possible to verify the QTL on the horse genome assembly (EquCab2) (Figure 1).…”