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A physical map of the bovine genome
BACKGROUND: 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...
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| Format: | Article |
| Idioma: | English |
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BioMed Central
2007
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| Accés en línia: | https://ncbi.nlm.nih.gov/pmc/articles/PMC2374996/ https://ncbi.nlm.nih.gov/pubmed/17697342 https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1186/gb-2007-8-8-r165 |
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pubmed-23749962008-05-10 A physical map of the bovine genome Snelling, Warren M Chiu, Readman Schein, Jacqueline E Hobbs, Matthew Abbey, Colette A Adelson, David L Aerts, Jan Bennett, Gary L Bosdet, Ian E Boussaha, Mekki Brauning, Rudiger Caetano, Alexandre R Costa, Marcos M Crawford, Allan M Dalrymple, Brian P Eggen, André Everts-van der Wind, Annelie Floriot, Sandrine Gautier, Mathieu Gill, Clare A Green, Ronnie D Holt, Robert Jann, Oliver Jones, Steven JM Kappes, Steven M Keele, John W de Jong, Pieter J Larkin, Denis M Lewin, Harris A McEwan, John C McKay, Stephanie Marra, Marco A Mathewson, Carrie A Matukumalli, Lakshmi K Moore, Stephen S Murdoch, Brenda Nicholas, Frank W Osoegawa, Kazutoyo Roy, Alice Salih, Hanni Schibler, Laurent Schnabel, Robert D Silveri, Licia Skow, Loren C Smith, Timothy PL Sonstegard, Tad S Taylor, Jeremy F Tellam, Ross Van Tassell, Curtis P Williams, John L Womack, James E Wye, Natasja H Yang, George Zhao, Shaying Genome Biol Research BACKGROUND: 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. BioMed Central 2007 2007-08-14 /pmc/articles/PMC2374996/ /pubmed/17697342 http://dx.doi.org/10.1186/gb-2007-8-8-r165 Text en Copyright © 2007 Snelling et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 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. |
| institution |
US National Library of Medicine |
| collection |
PubMed Central |
| language |
English |
| format |
Article |
| topic |
Research |
| spellingShingle |
Research Snelling, Warren M Chiu, Readman Schein, Jacqueline E Hobbs, Matthew Abbey, Colette A Adelson, David L Aerts, Jan Bennett, Gary L Bosdet, Ian E Boussaha, Mekki Brauning, Rudiger Caetano, Alexandre R Costa, Marcos M Crawford, Allan M Dalrymple, Brian P Eggen, André Everts-van der Wind, Annelie Floriot, Sandrine Gautier, Mathieu Gill, Clare A Green, Ronnie D Holt, Robert Jann, Oliver Jones, Steven JM Kappes, Steven M Keele, John W de Jong, Pieter J Larkin, Denis M Lewin, Harris A McEwan, John C McKay, Stephanie Marra, Marco A Mathewson, Carrie A Matukumalli, Lakshmi K Moore, Stephen S Murdoch, Brenda Nicholas, Frank W Osoegawa, Kazutoyo Roy, Alice Salih, Hanni Schibler, Laurent Schnabel, Robert D Silveri, Licia Skow, Loren C Smith, Timothy PL Sonstegard, Tad S Taylor, Jeremy F Tellam, Ross Van Tassell, Curtis P Williams, John L Womack, James E Wye, Natasja H Yang, George Zhao, Shaying A physical map of the bovine genome |
| description |
BACKGROUND: 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. |
| author |
Snelling, Warren M Chiu, Readman Schein, Jacqueline E Hobbs, Matthew Abbey, Colette A Adelson, David L Aerts, Jan Bennett, Gary L Bosdet, Ian E Boussaha, Mekki Brauning, Rudiger Caetano, Alexandre R Costa, Marcos M Crawford, Allan M Dalrymple, Brian P Eggen, André Everts-van der Wind, Annelie Floriot, Sandrine Gautier, Mathieu Gill, Clare A Green, Ronnie D Holt, Robert Jann, Oliver Jones, Steven JM Kappes, Steven M Keele, John W de Jong, Pieter J Larkin, Denis M Lewin, Harris A McEwan, John C McKay, Stephanie Marra, Marco A Mathewson, Carrie A Matukumalli, Lakshmi K Moore, Stephen S Murdoch, Brenda Nicholas, Frank W Osoegawa, Kazutoyo Roy, Alice Salih, Hanni Schibler, Laurent Schnabel, Robert D Silveri, Licia Skow, Loren C Smith, Timothy PL Sonstegard, Tad S Taylor, Jeremy F Tellam, Ross Van Tassell, Curtis P Williams, John L Womack, James E Wye, Natasja H Yang, George Zhao, Shaying |
| author_facet |
Snelling, Warren M Chiu, Readman Schein, Jacqueline E Hobbs, Matthew Abbey, Colette A Adelson, David L Aerts, Jan Bennett, Gary L Bosdet, Ian E Boussaha, Mekki Brauning, Rudiger Caetano, Alexandre R Costa, Marcos M Crawford, Allan M Dalrymple, Brian P Eggen, André Everts-van der Wind, Annelie Floriot, Sandrine Gautier, Mathieu Gill, Clare A Green, Ronnie D Holt, Robert Jann, Oliver Jones, Steven JM Kappes, Steven M Keele, John W de Jong, Pieter J Larkin, Denis M Lewin, Harris A McEwan, John C McKay, Stephanie Marra, Marco A Mathewson, Carrie A Matukumalli, Lakshmi K Moore, Stephen S Murdoch, Brenda Nicholas, Frank W Osoegawa, Kazutoyo Roy, Alice Salih, Hanni Schibler, Laurent Schnabel, Robert D Silveri, Licia Skow, Loren C Smith, Timothy PL Sonstegard, Tad S Taylor, Jeremy F Tellam, Ross Van Tassell, Curtis P Williams, John L Womack, James E Wye, Natasja H Yang, George Zhao, Shaying |
| author_sort |
Snelling, Warren M |
| title |
A physical map of the bovine genome |
| title_short |
A physical map of the bovine genome |
| title_full |
A physical map of the bovine genome |
| title_fullStr |
A physical map of the bovine genome |
| title_full_unstemmed |
A physical map of the bovine genome |
| title_sort |
physical map of the bovine genome |
| publisher |
BioMed Central |
| publisher_facet |
BioMed Central |
| publishDate |
2007 |
| url |
https://ncbi.nlm.nih.gov/pmc/articles/PMC2374996/ https://ncbi.nlm.nih.gov/pubmed/17697342 https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1186/gb-2007-8-8-r165 |
| _version_ |
1760582325192622080 |