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A radiation hybrid map of chicken Chromosome 4

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Abstract

The mapping resolution of the physical map for chicken Chromosome 4 (GGA4) was improved by a combination of radiation hybrid (RH) mapping and bacterial artificial chromosome (BAC) mapping. The ChickRH6 hybrid panel was used to construct an RH map of GGA4. Eleven microsatellites known to be located on GGA4 were included as anchors to the genetic linkage map for this chromosome. Based on the known conserved synteny between GGA4 and human Chromosomes 4 and X, sequences were identified for the orthologous chicken genes from these human chromosomes by BLAST analysis. These sequences were subsequently used for the development of STS markers to be typed on the RH panel. Using a logarithm of the odds (LOD) threshold of 5.0, nine linkage groups could be constructed which were aligned with the genetic linkage map of this chromosome. The resulting RH map consisted of the 11 microsatellite markers and 50 genes. To further increase the number of genes on the map and to provide additional anchor points for the physical BAC map of this chromosome, BAC clones were identified for 22 microsatellites and 99 genes. The combined RH and BAC mapping approach resulted in the mapping of 61 genes on GGA4 increasing the resolution of the chicken–human comparative map for this chromosome. This enhanced comparative mapping resolution enabled the identification of multiple rearrangements between GGA4 and human Chromosomes 4q and Xp.

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References

  • I Abdrakhomanov D Lodygin P Geroth H Arakawa et al. (2000) ArticleTitleA large database of chicken bursal ESTs as a resource for the analysis of vertebrate gene function Genome Res 10 2062–2069 Occurrence Handle10.1101/gr.10.12.2062 Occurrence Handle11116100

    Article  PubMed  Google Scholar 

  • J Aerts RPMA Crooijmans S Cornelissen K Hemmatian et al. (2003) ArticleTitleIntegration of chicken genomic resources to enable whole-genome sequencing Cytogenet Genome Res 102 297–303 Occurrence Handle10.1159/000075766 Occurrence Handle1:CAS:528:DC%2BD2cXhtlejtbs%3D Occurrence Handle14970720

    Article  CAS  PubMed  Google Scholar 

  • PE Boardman J Sanz–Ezquerro JM Overton DW Burt et al. (2002) ArticleTitleA comprehensive collection of chicken cDNAs Curr Biol 12 1965–1969 Occurrence Handle10.1016/S0960-9822(02)01296-4 Occurrence Handle12445392

    Article  PubMed  Google Scholar 

  • AJ Buitenhuis RPMA Crooijmans L Bruijnesteijn van Coppenraet A Veenendaal et al. (2002) ArticleTitleImprovement of the comparative map of chicken chromosome 13 Anim Genet 33 249–254 Occurrence Handle10.1046/j.1365-2052.2002.00861.x Occurrence Handle1:CAS:528:DC%2BD38XmvVWrtb8%3D Occurrence Handle12139503

    Article  CAS  PubMed  Google Scholar 

  • DW Burt C Bruley IC Dunn CT Jones et al. (1999) ArticleTitleThe dynamics of chromosome evolution in birds and mammals Nature 402 411–413 Occurrence Handle10.1038/46555 Occurrence Handle1:CAS:528:DyaK1MXnvVyku7g%3D Occurrence Handle10586880

    Article  CAS  PubMed  Google Scholar 

  • BP Chowdhary T Raudsepp (2000) ArticleTitleHSA4 and GGA4: Remarkable conservation despite 300-Myr divergence Genomics 64 102–105 Occurrence Handle10.1006/geno.1999.6085 Occurrence Handle1:CAS:528:DC%2BD3cXhsFKisbk%3D Occurrence Handle10708523

    Article  CAS  PubMed  Google Scholar 

  • DR Cox M Burmeister ER Price S Kim RM Myers (1990) ArticleTitleRadiation hybrid mapping: A somatic cell genetic method for constructing high-resolution maps of mammalian chromosomes Science 250 245–250 Occurrence Handle1:CAS:528:DyaK3cXmt1Gkur4%3D Occurrence Handle2218528

    CAS  PubMed  Google Scholar 

  • RPMA Crooijmans JJ Poel Particlevan der MAM Groenen (1995) ArticleTitleFunctional genes mapped on the chicken genome Anim Genet 26 73–78 Occurrence Handle1:STN:280:ByqB2M7itFI%3D Occurrence Handle7733510

    CAS  PubMed  Google Scholar 

  • RPMA Crooijmans J Verbalove RJM Dijkhof JJ Poel ParticleVan Der MAM Groenen (2000) ArticleTitleTwo-dimensional screening of the wageningen chicken BAC library Mamm Genome 11 360–363 Occurrence Handle10.1007/s003350010068 Occurrence Handle1:CAS:528:DC%2BD3cXjt1Kjtbg%3D Occurrence Handle10790534

    Article  CAS  PubMed  Google Scholar 

  • RPMA Crooijmans RJM Dijkhof T Veenendaal JJ Poel Particlevan der et al. (2001) ArticleTitleThe gene orders on human chromosome 15 and chicken chromosome 10 reveal multiple inter- and intrachromosomal rearrangements Mol Biol Evol 18 2102–2109 Occurrence Handle1:CAS:528:DC%2BD3MXotVSlsbc%3D Occurrence Handle11606706

    CAS  PubMed  Google Scholar 

  • R Geisler G-J Rauch H Baier F Bebber ParticleVan et al. (1999) ArticleTitleA radiation hybrid map of the zebrafish genome Nat Genet 23 86–89 Occurrence Handle10.1038/12692 Occurrence Handle1:CAS:528:DyaK1MXlvFWhtr0%3D Occurrence Handle10471505

    Article  CAS  PubMed  Google Scholar 

  • S Goss H Harris (1975) ArticleTitleNew method for mapping genes in human chromosomes Nature 255 680–684 Occurrence Handle1:CAS:528:DyaE2MXlt1ynsbw%3D Occurrence Handle1169690

    CAS  PubMed  Google Scholar 

  • MAM Groenen RPMA Crooijmans (2003) Structural genomics: integrating linkage, physical and sequence maps WM Muir RK Koehn (Eds) Poultry genetics, breeding and technology CAB International Cambridge, MA 497–536

    Google Scholar 

  • MAM Groenen RPMA Crooijmans A Veenendaal HH Cheng et al. (1998) ArticleTitleA comprehensive microsatellite linkage map of the chicken genome Genomics 49 265–274 Occurrence Handle10.1006/geno.1998.5225 Occurrence Handle1:CAS:528:DyaK1cXjtlajsb4%3D Occurrence Handle9598314

    Article  CAS  PubMed  Google Scholar 

  • MAM Groenen HH Cheng N Bumstead B Benkel et al. (2000) ArticleTitleConsensus linkage map of the chicken genome Genome Res 10 137–147 Occurrence Handle1:CAS:528:DC%2BD3cXpsl2juw%3D%3D Occurrence Handle10645958

    CAS  PubMed  Google Scholar 

  • G Gyapay K Schmitt C Fizames H Jones et al. (1996) ArticleTitleA radiation hybrid map of the human genome Hum Mol Genet 5 339–346 Occurrence Handle10.1093/hmg/5.3.339 Occurrence Handle1:CAS:528:DyaK28XhsFyntLs%3D Occurrence Handle8852657

    Article  CAS  PubMed  Google Scholar 

  • DGJ Jennen RPMA Crooijmans B Kamps A Acar et al. (2002) ArticleTitleA comparative map of chicken chromosome 24 and human chromosome 11 Anim Genet 33 205–210 Occurrence Handle10.1046/j.1365-2052.2002.00860.x Occurrence Handle1:CAS:528:DC%2BD38Xlt1Kjs7c%3D Occurrence Handle12030924

    Article  CAS  PubMed  Google Scholar 

  • DGJ Jennen RPMA Crooijmans B Kamps R Açar et al. (2003) ArticleTitleComparative map between chicken chromosome 15 and human chromosomal region 12q24 and 22q11-q12 Mamm Genome 14 629–639 Occurrence Handle10.1007/s00335-003-3007-z Occurrence Handle1:CAS:528:DC%2BD3sXnslGmsr0%3D Occurrence Handle14629113

    Article  CAS  PubMed  Google Scholar 

  • DGJ Jennen RPMA Crooijmans M Morisson AE Grootemaat et al. (2004) ArticleTitleA radiation hybrid map of chicken chromosome 15 Anim Genet 35 63–65 Occurrence Handle1:CAS:528:DC%2BD2cXitVKltrw%3D Occurrence Handle14731233

    CAS  PubMed  Google Scholar 

  • SL Kiguwa P Hextall AL Smith R Critcher et al. (2000) ArticleTitleCharacterization of whole genome radiation hybrid panel: Chromosomes 1 and 10 preliminary maps Mamm Genome 11 803–805 Occurrence Handle10.1007/s003350010146 Occurrence Handle1:CAS:528:DC%2BD3cXnt1Olu7s%3D Occurrence Handle10967144

    Article  CAS  PubMed  Google Scholar 

  • DM Larkin A Everts–van der wind WM Rebeiz PA Schweitzer et al. (2003) ArticleTitleA cattle–human comparative map built with cattle BAC-ends and human genome sequence Genome Res 13 1966–1972 Occurrence Handle12902387

    PubMed  Google Scholar 

  • Y Matsishima K Matsumura S Ishii Y Suzuki et al. (2000) ArticleTitleChromosomal assignment of the chicken NP220 gene encoding a large DNA-binding nuclear protein and its targeted disruption in chicken DT40 cells Cytotechnology 33 109–115 Occurrence Handle10.1023/A:1008107227862

    Article  Google Scholar 

  • LC McCarthy J Terrett ME Davis AL Smith et al. (1997) ArticleTitleA first-generation whole-genome radiation hybrid map spanning the mouse genome Genome Res 7 1153–1161 Occurrence Handle1:CAS:528:DyaK1cXkvFWkug%3D%3D Occurrence Handle9414320

    CAS  PubMed  Google Scholar 

  • M Morisson A Lemière S Bosc M Galan et al. (2002) ArticleTitleChickRH6: a chicken whole-genome radiation hybrid panel Genet Sel Evol 34 521–533 Occurrence Handle10.1051/gse:2002021 Occurrence Handle1:CAS:528:DC%2BD38Xns1enu7Y%3D Occurrence Handle12270108

    Article  CAS  PubMed  Google Scholar 

  • I Nanda M Koehler M Schartl DW Burt et al. (1999) ArticleTitle300 million years of conserved synteny between chicken Z and human chromosome 9 Nat Genet 21 258–259 Occurrence Handle10.1038/6769 Occurrence Handle1:CAS:528:DyaK1MXitVCit7k%3D Occurrence Handle10080173

    Article  CAS  PubMed  Google Scholar 

  • SJ O’Brien JE Womack LA Lyons KJ Moore et al. (1993) ArticleTitleAnchored reference loci for comparative genome mapping in mammals Nat Genet 3 103–112 Occurrence Handle1:CAS:528:DyaK3sXhtFyjsL4%3D Occurrence Handle8499943

    CAS  PubMed  Google Scholar 

  • SJ O’Brien MM Raymond WJ Murphy WG Nash et al. (1999) ArticleTitleThe promise of comparative genomics in mammals Science 286 458–481 Occurrence Handle10.1126/science.286.5439.458 Occurrence Handle1:CAS:528:DyaK1MXmvVOht74%3D Occurrence Handle10521336

    Article  CAS  PubMed  Google Scholar 

  • A Rink EM Santschi KM Eyer B Roelofs et al. (2002) ArticleTitleA first generation EST RH comparative map of porcine and human genome Mamm Genome 13 578–587 Occurrence Handle10.1007/s00335-002-2192-5 Occurrence Handle1:CAS:528:DC%2BD38Xos1amu7c%3D Occurrence Handle12420136

    Article  CAS  PubMed  Google Scholar 

  • T Schiex C Gaspin (1997) ArticleTitleCARTHAGENE: constructing and joining maximum likelihood genetic maps Proc Int Conf Intell Syst Mol Biol 5 258–267 Occurrence Handle1:STN:280:ByiH28zis1c%3D Occurrence Handle9322047

    CAS  PubMed  Google Scholar 

  • M Schmid I Nanda M Guttenbach C Steinlein et al. (2000) ArticleTitleFirst report on chicken genes and chromosomes 2000 Cytogenet Cell Genet 90 169–218 Occurrence Handle10.1159/000056772 Occurrence Handle1:STN:280:DC%2BD3M7gtFCksw%3D%3D Occurrence Handle11124517

    Article  CAS  PubMed  Google Scholar 

  • EJ Smith LA Lyons HH Cheng SP Suchyta (1997) ArticleTitleComparative mapping of the chicken genome using the East Lansing reference population Poultry Sci 76 743–747 Occurrence Handle1:CAS:528:DyaK2sXjvFyjsLY%3D

    CAS  Google Scholar 

  • SP Suchyta HH Cheng J Burnside JB Dodgson (2001) ArticleTitleComparative mapping of chicken anchor loci orthologous to genes on human chromosomes 1, 4 and 9 Anim Genet 32 12–18 Occurrence Handle10.1046/j.1365-2052.2001.00717.x Occurrence Handle1:CAS:528:DC%2BD3MXkvVOhsrY%3D Occurrence Handle11419339

    Article  CAS  PubMed  Google Scholar 

  • HS Sun L Cai SK Davis JF Taylor et al. (1997) ArticleTitleComparative linkage mapping of human chromosome 13 and bovine chromosome 12 Genomics 39 47–54 Occurrence Handle10.1006/geno.1996.4481 Occurrence Handle1:CAS:528:DyaK2sXosFemtg%3D%3D Occurrence Handle9027485

    Article  CAS  PubMed  Google Scholar 

  • HS Sun M Yerle P Pinton P Chardon et al. (1999) ArticleTitlePhysical assignments of human chromosome 13 genes on pig chromosome 11 demonstrate extensive synteny and gene order conservation between pig and human Anim Genet 30 304–308 Occurrence Handle10.1046/j.1365-2052.1999.00474.x Occurrence Handle1:CAS:528:DyaK1MXlvVagurg%3D Occurrence Handle10467706

    Article  CAS  PubMed  Google Scholar 

  • T Suzuki T Kurosaki K Shimada N Kansaku et al. (1999) ArticleTitleCytogenetic mapping of 31 functional genes on chicken chromosomes by direct R-banding FISH Cytogenet Cell Genet 87 32–40 Occurrence Handle10.1159/000015388 Occurrence Handle1:CAS:528:DC%2BD3cXltlWmtQ%3D%3D Occurrence Handle10640808

    Article  CAS  PubMed  Google Scholar 

  • VG Tirunaguru L Sofer J Cui J Burnside (2000) ArticleTitleAn expressed sequence tag database of T-cell-enriched activated chicken splenocytes: sequence analysis of 5251 clones Genomics 66 144–151 Occurrence Handle10.1006/geno.2000.6189 Occurrence Handle10860659

    Article  PubMed  Google Scholar 

  • MA Walter DJ Spillett P Tomas J Weissenbach PN Goodfellow (1994) ArticleTitleA method for constructing radiation hybrid maps of whole genomes Nat Genet 7 22–28 Occurrence Handle1:CAS:528:DyaK2cXkt1yjsLs%3D Occurrence Handle8075634

    CAS  PubMed  Google Scholar 

  • M Yerle P Pinton A Robic A Alfonso et al. (1998) ArticleTitleConstruction of a whole-genome radiation hybrid panel for high-resolution gene mapping in pigs Cytogenet Cell Genet 82 182–188 Occurrence Handle10.1159/000015095 Occurrence Handle1:CAS:528:DyaK1MXkslyqtQ%3D%3D Occurrence Handle9858812

    Article  CAS  PubMed  Google Scholar 

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Acknowledgments

The authors would like to thank the Egyptian Ministry of Higher Education and Scientific Research for financial support (Project No. 29110/416000).

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  1. Tarik S.K.M. Rabie

    Present address: Suez Canal University Faculty of Agriculture, Biotechnology Research Institute, 41522, Ismailia, Egypt

Authors and Affiliations

  1. Wageningen Institute of Animal Sciences, Animal Breeding and Genetics Group, Wageningen University, Marijkeweg 40, 6709, PG, Wageningen, The Netherlands

    Tarik S.K.M. Rabie, Richard P.M.A. Crooijmans, Joanna Andryszkiewicz, Jan J. van der Poel & Martien A.M. Groenen

  2. Laboratoire de génétique cellulaire, Institut national de la recherche agronomique, 31326, Castanet-Tolosan, France

    Mireille Morisson & Alain Vignal

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  1. Tarik S.K.M. Rabie
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Correspondence to Tarik S.K.M. Rabie.

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Rabie, T.S., Crooijmans, R.P., Morisson, M. et al. A radiation hybrid map of chicken Chromosome 4. Mamm Genome 15, 560–569 (2004). https://doi.org/10.1007/s00335-004-2362-8

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  • DOI: https://doi.org/10.1007/s00335-004-2362-8

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