TITLE

A high resolution radiation hybrid map of bovine chromosome 14 identifies scaffold rearrangement in the latest bovine assembly

AUTHOR(S)
Marques, Elisa; de Givry, Simon; Stothard, Paul; Murdoch, Brenda; Zhiquan Wang; Womack, James; Moore, Stephen S
PUB. DATE
January 2007
SOURCE
BMC Genomics;2007, Vol. 8, p254
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
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 (Btau̱3.1) 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. Conclusion: 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.
ACCESSION #
28858880

 

Related Articles

  • Patterns of Recombination and MLH1 Foci Density Along Mouse Chromosomes: Modeling Effects of Interference and Obligate Chiasma. Falque, M.; Mercier, R.; Mézard, C.; De Vienne, D.; Martin, O. C. // Genetics;Jul2007, Vol. 176 Issue 3, p1453 

    Crossover interference in meiosis is often modeled via stationary renewal processes. Here we consider a new model to incorporate the known biological feature of "obligate chiasma" whereby in most organisms each bivalent almost always has at least one crossover. The initial crossover is modeled...

  • genetic (linkage) map:. Schlegel, Rolf H. J. // Encyclopedic Dictionary of Plant Breeding & Related Subjects;2003, p188 

    The article presents an encyclopedia entry about genetic linkage map. It refers to the linear arrangement of gene loci on a chromosome as seen in genetic experiments. A unit of genetic map is characterized as the distance between gene pairs, in whic

  • Integrating linkage and radiation hybrid mapping data for bovine chromosome 15. Snelling, Warren M.; Gautier, Mathieu; Keele, John W.; Smith, Timothy P. L.; Stone, Roger T.; Harhay, Gregory P.; Bennett, Gary L.; Ihara, Naoya; Takasuga, Akiko; Takeda, Haruko; Sugimoto, Yoshikazu; Eggen, André // BMC Genomics;2004, Vol. 5, p77 

    Background: Bovine chromosome (BTA) 15 contains a quantitative trait loci (QTL) for meat tenderness, as well as several breaks in synteny with human chromosome (HSA) 11. Both linkage and radiation hybrid (RH) maps of BTA 15 are available, but the linkage map lacks gene-specific markers needed to...

  • High density linkage disequilibrium maps of chromosome 14 in Holstein and Angus cattle. Marques, Elisa; Schnabel, Robert D.; Stothard, Paul; Kolbehdari, Davood; Zhiquan Wang; Taylor, Jeremy F.; Moore, Stephen S. // BMC Genetics;2008, Vol. 9, Special section p1 

    Background: Linkage disequilibrium (LD) maps can provide a wealth of information on specific marker-phenotype relationships, especially in areas of the genome where positional candidate genes with similar functions are located. A recently published high resolution radiation hybrid map of bovine...

  • Inversions of chromosome arms 4AL and 2BS in wheat invert the patterns of chiasma distribution. Lukaszewski, Adam; Kopecky, David; Linc, Gabriella // Chromosoma;Apr2012, Vol. 121 Issue 2, p201 

    In many species, including wheat, crossing over is distal, and the proximal regions of chromosome arms contribute little to genetic maps. This was thought to be a consequence of terminal initiation of synapsis favoring distal crossing over. However, in an inverted rye chromosome arm, the pattern...

  • Genetic mapping of loci responsible for milk production traits in dairy cattle. Smaragdov, M. G. // Russian Journal of Genetics;Jan2006, Vol. 42 Issue 1, p1 

    The review presents a definition of loci controlling quantitative traits (quantitative trait loci, QTLs) and localization of all currently known QTLs responsible for milk production traits in dairy cattle. The QTL number and chromosome localization are verified, with special reference to...

  • High resolution mapping of trypanosomosis resistance loci Tir2 and Tir3 using F12 advanced intercross lines with major locus Tir1 fixed for the susceptible allele. Nganga, Joseph K.; Soller, Morris; Iraqi, Fuad A. // BMC Genomics;2010, Vol. 11, p394 

    Background: Trypanosomosis is the most economically important disease constraint to livestock productivity in Africa. A number of trypanotolerant cattle breeds are found in West Africa, and identification of the genes conferring trypanotolerance could lead to effective means of genetic selection...

  • Measuring conservation of contiguous sets of autosomal markers on bovine and porcine genomes in relation to the map of the human genome. Jiang, Zhihua; Melville, Jenna S; Cao, Honghe; Kumar, Sudhir; Filipski, Alan; Verrinder Gibbins, Ann M // Genome;Aug2002, Vol. 45 Issue 4, p769 

    Based on published information, we have identified 991 genes and gene-family clusters for cattle and 764 for pigs that have orthologues in the human genome. The relative linear locations of these genes on human sequence maps were used as "rulers" to annotate bovine and porcine genomes based on a...

  • Functional genetic analysis of mouse chromosome 11. Kile, Benjamin T.; Hentges, Kathryn E.; Clark, Amander T.; Nakamura, Hisashi; Salinger, Andrew P.; Bin Liu; Box, Neil; Stockton, David W.; Johnson, Randy L.; Behringer, Richard R.; Bradley, Allan; Justice, Monica J. // Nature;9/4/2003, Vol. 425 Issue 6953, p81 

    Now that the mouse and human genome sequences are complete, biologists need systematic approaches to determine the function of each gene. A powerful way to discover gene function is to determine the consequence of mutations in living organisms. Large-scale production of mouse mutations with the...

Share

Read the Article

Courtesy of THE LIBRARY OF VIRGINIA

Sorry, but this item is not currently available from your library.

Try another library?
Sign out of this library

Other Topics