title: A high resolution radiation hybrid map of bovine chromosome 14 identifies scaffold rearrangement in the latest bovine assembly.
abstract: BACKGROUND
  Radiation hybrid (RH) maps are considered to be a tool of choice for fine mapping closely linked loci, considering that the resolution of linkage maps is determined by the number of informative meiosis and recombination events which may require very large mapping populations. Accurately defining the marker order on chromosomes is crucial for correct identification of quantitative trait loci (QTL), haplotype map construction and refinement of candidate gene searches.
  
  
  RESULTS
  A 12 k Radiation hybrid map of bovine chromosome 14 was constructed using 843 single nucleotide polymorphism markers. The resulting map was aligned with the latest version of the bovine assembly (Btau_3.1) as well as other previously published RH maps. The resulting map identified distinct regions on Bovine chromosome 14 where discrepancies between this RH map and the bovine assembly occur. A major region of discrepancy was found near the centromere involving the arrangement and order of the scaffolds from the assembly. The map further confirms previously published conserved synteny blocks with human chromosome 8. As well, it identifies an extra breakpoint and conserved synteny block previously undetected due to lower marker density. This conserved synteny block is in a region where markers between the RH map presented here and the latest sequence assembly are in very good agreement.
  
  
  CONCLUSIONS
  The increase of publicly available markers shifts the rate limiting step from marker discovery to the correct identification of their order for further use by the research community. This high resolution map of bovine chromosome 14 will facilitate identification of regions in the sequence assembly where additional information is required to resolve marker ordering.
authors.affiliation: Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, Canada. emarques@ualberta.ca <emarques@ualberta.ca>
authors.forename: Elisa
authors.initials: E
authors.lastname: Marques
authors.forename: Simon
authors.initials: S
authors.lastname: de Givry
authors.forename: Paul
authors.initials: P
authors.lastname: Stothard
authors.forename: Brenda
authors.initials: B
authors.lastname: Murdoch
authors.forename: Zhiquan
authors.initials: Z
authors.lastname: Wang
authors.forename: James
authors.initials: J
authors.lastname: Womack
authors.forename: Stephen S
authors.initials: SS
authors.lastname: Moore
mesh_terms: D000818:Animals; D002417:Cattle; D002898:Chromosomes, Human, Pair 8 / Q000235:genetics*; D033481:Chromosomes, Mammalian / Q000235:genetics*; D008040:Genetic Linkage; D005819:Genetic Markers / Q000235:genetics; D006801:Humans; D020641:Polymorphism, Single Nucleotide; D040641:Quantitative Trait Loci; D021101:Radiation Hybrid Mapping / Q000379:methods*; D026801:Synteny
chemical_list: D005819:Genetic Markers