A physical map of the bovine genome

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dc.contributor.authorSnelling, W.
dc.contributor.authorChiu, R.
dc.contributor.authorSchein, J.
dc.contributor.authorHobbs, M.
dc.contributor.authorAbbey, C.
dc.contributor.authorAdelson, D.
dc.contributor.authorAerts, J.
dc.contributor.authorBennett, G.
dc.contributor.authorBosdet, I.
dc.contributor.authorBoussaha, M.
dc.contributor.authorBrauning, R.
dc.contributor.authorCaetano, A.
dc.contributor.authorCosta, M.
dc.contributor.authorCrawford, A.
dc.contributor.authorDalrymple, B.
dc.contributor.authorEggen, A.
dc.contributor.authorEverts-van der Wind, A.
dc.contributor.authorFloriot, S.
dc.contributor.authorGautier, M.
dc.contributor.authorGill, C.
dc.contributor.authoret al.
dc.date.issued2007
dc.description.abstractBackground Cattle are important agriculturally and relevant as a model organism. Previously described genetic and radiation hybrid (RH) maps of the bovine genome have been used to identify genomic regions and genes affecting specific traits. Application of these maps to identify influential genetic polymorphisms will be enhanced by integration with each other and with bacterial artificial chromosome (BAC) libraries. The BAC libraries and clone maps are essential for the hybrid clone-by-clone/whole-genome shotgun sequencing approach taken by the bovine genome sequencing project. Results A bovine BAC map was constructed with HindIII restriction digest fragments of 290,797 BAC clones from animals of three different breeds. Comparative mapping of 422,522 BAC end sequences assisted with BAC map ordering and assembly. Genotypes and pedigree from two genetic maps and marker scores from three whole-genome RH panels were consolidated on a 17,254-marker composite map. Sequence similarity allowed integrating the BAC and composite maps with the bovine draft assembly (Btau3.1), establishing a comprehensive resource describing the bovine genome. Agreement between the marker and BAC maps and the draft assembly is high, although discrepancies exist. The composite and BAC maps are more similar than either is to the draft assembly. Conclusion Further refinement of the maps and greater integration into the genome assembly process may contribute to a high quality assembly. The maps provide resources to associate phenotypic variation with underlying genomic variation, and are crucial resources for understanding the biology underpinning this important ruminant species so closely associated with humans.
dc.description.statementofresponsibilityWarren M Snelling, Readman Chiu, Jacqueline E Schein, Matthew Hobbs, Colette A Abbey, David L Adelson, Jan Aerts, Gary L Bennett, Ian E Bosdet, Mekki Boussaha, Rudiger Brauning, Alexandre R Caetano, Marcos M Costa, Allan M Crawford, Brian P Dalrymple, André Eggen, Annelie Everts-van der Wind, Sandrine Floriot, Mathieu Gautier, Clare A Gill, Ronnie D Green, Robert Holt, Oliver Jann, Steven JM Jones, Steven M Kappes, John W Keele, Pieter J de Jong, Denis M Larkin, Harris A Lewin,, John C McEwan, Stephanie McKay, Marco A Marra, Carrie A Mathewson, Lakshmi K Matukumalli, Stephen S Moore, Brenda Murdoch, Frank W Nicholas, Kazutoyo Osoegawa, Alice Roy, Hanni Salih, Laurent Schibler, Robert D Schnabel, Licia Silveri, Loren C Skow, Timothy PL Smith, Tad S Sonstegard, Jeremy F Taylor, Ross Tellam, Curtis P Van Tassell, John L Williams, James E Womack, Natasja H Wye, George Yang, Shaying Zhao, and the International Bovine BAC Mapping Consortium
dc.identifier.citationGenome Biology, 2007; 8(8):1-17
dc.identifier.doi10.1186/gb-2007-8-8-r165
dc.identifier.issn1474-7596
dc.identifier.issn1474-760X
dc.identifier.orcidAdelson, D. [0000-0003-2404-5636]
dc.identifier.orcidWilliams, J. [0000-0001-5188-7957]
dc.identifier.urihttp://hdl.handle.net/2440/46981
dc.language.isoen
dc.publisherBioMed Central Ltd.
dc.rights© 2007 Snelling et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.source.urihttps://doi.org/10.1186/gb-2007-8-8-r165
dc.subjectInternational Bovine BAC Mapping Consortium
dc.subjectChromosomes, Artificial, Bacterial
dc.subjectChromosomes, Mammalian
dc.subjectAnimals
dc.subjectCattle
dc.subjectHumans
dc.subjectDeoxyribonuclease HindIII
dc.subjectGenetic Markers
dc.subjectRadiation Hybrid Mapping
dc.subjectPedigree
dc.subjectSequence Alignment
dc.subjectBase Sequence
dc.subjectGene Order
dc.subjectGenotype
dc.subjectGenome
dc.subjectGenome, Human
dc.subjectMolecular Sequence Data
dc.titleA physical map of the bovine genome
dc.typeJournal article
pubs.publication-statusPublished

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