TITLE

A high resolution physical and RH map of pig chromosome 6q1.2 and comparative analysis with human chromosome 19q13.1

AUTHOR(S)
Martins-Wess, Flávia; Milan, Denis; Drögemüller, Cord; Voß-Nemitz, Rodja; Brenig, Bertram; Robic, Annie; Yerle, Martine; Leeb, Tosso
PUB. DATE
January 2003
SOURCE
BMC Genomics;2003, Vol. 4, p20
SOURCE TYPE
Academic Journal
DOC. TYPE
Article
ABSTRACT
Background: The generation of BAC/PAC contigs in targeted genome regions is a powerful method to establish high-resolution physical maps. In domestic animal species the generation of such contigs is typically initiated with the screening of libraries with probes derived from human genes that are expected to be located in the region of interest by comparative mapping. However, in many instances the available gene-derived probes are too far apart to allow the cloning of BAC/ PAC contigs larger than a few hundred kb. High resolution physical mapping allows to estimate the sizes of gaps and to control the orientation of the individual sub-contigs, which helps to avoid errors during the assembly of smaller contigs into final Mb-sized contigs. The recently constructed porcine IMNpRH2 panel allowed us to use this approach for the construction of high-resolution physical maps of SSC 6q1.2. Results: Two sequence-ready BAC/PAC contigs of the gene-rich region on porcine chromosome 6q1.2 (SSC 6q1.2) containing the RYRI gene were constructed. The two contigs spanned about 1.2 Mb and 2.0 Mb respectively. The construction of these contigs was monitored by the results provided by the mapping of 15 markers on the ImpRH7000rad and 35 markers on the IMNpRH212000rad radiation hybrid panels. Analyses on the IMpRH panel allowed us to globally link and orientate preliminary smaller contigs, whereas analyses on the high resolution IMNpRH2 panel allowed us to finally identify the order of genes and markers. Conclusions: A framework map of 523 cR12000 was established covering the whole studied region. The order of markers on the framework 1000:1 RH map was found totally consistent with the data deduced from the contig map. The kb/cR ratio was very constant in the whole region, with an average value of 6.6 kb/cR. We estimate that the size of the remaining gap between the two contigs is of about 300 kb. The integrated physical and RH map of the investigated region on SSC 6q1.2 was used for a comparative analysis with respect to the syntenic regions on HSA 19q13.1 and MMU 7 and revealed a perfectly conserved gene order across the entire studied interval.
ACCESSION #
28834579

 

Related Articles

  • Data modeling as a main source of discrepancies in single and multiple marker association methods. Ledur, Mônica Corrêa; Navarro, Nicolas; Pérez-Enciso, Miguel // BMC Proceedings;2009 Supplement 1, Vol. 3, p1 

    Background: Genome-wide association studies have successfully identified several loci underlying complex diseases in humans. The development of high density SNP maps in domestic animal species should allow the detection of QTLs for economically important traits through association studies with...

  • Comparative gene mapping in cattle, Indian muntjac, and Chinese muntjac by fluorescence in situ hybridization. Antoaneta Mincheva; Mathieu Gautier; Fentang Yang; Johannes Buitkamp; Pamela Strissel; Reiner Strick; Janet Rowley; Peter Lichter // Genetica;Nov2008, Vol. 134 Issue 3, p345 

    Abstract  The Indian muntjac (Muntiacus muntjak vaginalis) has a karyotype of 2n = 6 in the female and 2n = 7 in the male. The karyotypic evolution of Indian muntjac via extensive tandem fusions and several centric fusions are well documented by molecular cytogenetic studies...

  • Haplotypes of pools? L.M. // Nature;4/24/2003, Vol. 422 Issue 6934, p921 

    Reports on the U.S. National Human Genome Research Institute's haplotype map project HapMap to provide the tools that will speed up the discovery of genetic factors that contribute to common conditions. Development of a genome map of haplotype blocks from different ethnic groups; Countries...

  • A Message to Us, From Our Genome. Sahtouris, Elisabet // World Watch;May/June2001, Vol. 14 Issue 3, p4 

    Focuses on the completion of the Human Genome Project. Difficulties in interpretation; Evolution in crisis situations; Implications of genome project.

  • Genomics. Larson, Laurie // Trustee;Jan2000, Vol. 53 Issue 1, p8 

    Focuses on genomics which is the study of the complete set of human genes. Purpose of creating a map of the human genome; Explanation from Steve Warren, investigator with the Howard Hughes Medical Institute; Components of the human genes.

  • Mapping Epistatic Quantitative Trait Loci With One-Dimensional Genome Searches. Jannink, Jean-Luc; Jansen, Ritsert // Genetics;Jan2001, Vol. 157 Issue 1, p445 

    Describes a method developed for mapping of epistatic quantitative trait loci (QTL) by identifying loci of high QTL by genetic background interaction. Genome generation; QTL-by-background interaction; QTL analysis; First-order QTL interaction; Combining across- and within-population...

  • The nature of the number.  // Nature Genetics;Jun2000, Vol. 25 Issue 2, p127 

    Focuses on the competition for estimating the total number of human genes. Proposed limits to human gene complements; Comparative study involving genomic sequence of the pufferfish and human draft sequence.

  • Genomic organization of a novel glycosylphosphatidylinositol MAM gene expressed in human tissues and tumors. De Juan, Carmen; Iniesta, Pilar; Gonzalez-Quevedo, Rosa; Moran, Alberto; Sanchez-Pernaute, Andres; Torres, Antonio J.; Balibrea, Jose Luis; Diaz-Rubio, Eduardo; Cruces, Jesus; Benito, Manuel // Oncogene;5/2/2002, Vol. 21 Issue 19, p3089 

    Presents a study which examined the genomic organization of a novel human gene mapped to chromosome 6p21. Details on the encoding of a putative glycosylphosphatidylinositol anchored protein; Expression of sequence tags in RP3-402N21 clone; Implication of cell-to-cell interactions.

  • Genome ethics chair resigns amid worries over autonomy. Lehrman, Sally // Nature;3/14/1996, Vol. 380 Issue 6570, p96 

    Announces the resignation of Lori Andrews as the chair of a group providing advice about the ethical, legal and social implications of the Human Genome Project. The interference of the National Center for Human Genome Research in the group's budget allocation and position statements leading to...

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