Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle
<p>Abstract</p> <p>Background</p> <p>In a previously reported genome-wide association study based on a high-density bovine SNP genotyping array, 8 SNP were nominally associated (<it>P </it>≤ 0.003) with average daily gain (ADG) and 3 of these were also assoc...
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| Format: | Article |
| Language: | English |
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BMC
2011-12-01
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| Series: | BMC Genetics |
| Online Access: | http://www.biomedcentral.com/1471-2156/12/103 |
| _version_ | 1818229602640723968 |
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| author | Lindholm-Perry Amanda K Sexten Andrea K Kuehn Larry A Smith Timothy PL King D Andy Shackelford Steven D Wheeler Tommy L Ferrell Calvin L Jenkins Thomas G Snelling Warren M Freetly Harvey C |
| author_facet | Lindholm-Perry Amanda K Sexten Andrea K Kuehn Larry A Smith Timothy PL King D Andy Shackelford Steven D Wheeler Tommy L Ferrell Calvin L Jenkins Thomas G Snelling Warren M Freetly Harvey C |
| author_sort | Lindholm-Perry Amanda K |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>In a previously reported genome-wide association study based on a high-density bovine SNP genotyping array, 8 SNP were nominally associated (<it>P </it>≤ 0.003) with average daily gain (ADG) and 3 of these were also associated (<it>P </it>≤ 0.002) with average daily feed intake (ADFI) in a population of crossbred beef cattle. The SNP were clustered in a 570 kb region around 38 Mb on the draft sequence of bovine chromosome 6 (BTA6), an interval containing several positional and functional candidate genes including the bovine <it>LAP3, NCAPG</it>, and <it>LCORL </it>genes. The goal of the present study was to develop and examine additional markers in this region to optimize the ability to distinguish favorable alleles, with potential to identify functional variation.</p> <p>Results</p> <p>Animals from the original study were genotyped for 47 SNP within or near the gene boundaries of the three candidate genes. Sixteen markers in the <it>NCAPG-LCORL </it>locus displayed significant association with both ADFI and ADG even after stringent correction for multiple testing (P ≤ 005). These markers were evaluated for their effects on meat and carcass traits. The alleles associated with higher ADFI and ADG were also associated with higher hot carcass weight (HCW) and ribeye area (REA), and lower adjusted fat thickness (AFT). A reduced set of markers was genotyped on a separate, crossbred population including genetic contributions from 14 beef cattle breeds. Two of the markers located within the <it>LCORL </it>gene locus remained significant for ADG (P ≤ 0.04).</p> <p>Conclusions</p> <p>Several markers within the <it>NCAPG-LCORL </it>locus were significantly associated with feed intake and body weight gain phenotypes. These markers were also associated with HCW, REA and AFT suggesting that they are involved with lean growth and reduced fat deposition. Additionally, the two markers significant for ADG in the validation population of animals may be more robust for the prediction of ADG and possibly the correlated trait ADFI, across multiple breeds and populations of cattle.</p> |
| first_indexed | 2024-12-12T10:21:13Z |
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| institution | Directory Open Access Journal |
| issn | 1471-2156 |
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| last_indexed | 2024-12-12T10:21:13Z |
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| spelling | doaj.art-465a6478f67b430690d7952ea586ebe92022-12-22T00:27:32ZengBMCBMC Genetics1471-21562011-12-0112110310.1186/1471-2156-12-103Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattleLindholm-Perry Amanda KSexten Andrea KKuehn Larry ASmith Timothy PLKing D AndyShackelford Steven DWheeler Tommy LFerrell Calvin LJenkins Thomas GSnelling Warren MFreetly Harvey C<p>Abstract</p> <p>Background</p> <p>In a previously reported genome-wide association study based on a high-density bovine SNP genotyping array, 8 SNP were nominally associated (<it>P </it>≤ 0.003) with average daily gain (ADG) and 3 of these were also associated (<it>P </it>≤ 0.002) with average daily feed intake (ADFI) in a population of crossbred beef cattle. The SNP were clustered in a 570 kb region around 38 Mb on the draft sequence of bovine chromosome 6 (BTA6), an interval containing several positional and functional candidate genes including the bovine <it>LAP3, NCAPG</it>, and <it>LCORL </it>genes. The goal of the present study was to develop and examine additional markers in this region to optimize the ability to distinguish favorable alleles, with potential to identify functional variation.</p> <p>Results</p> <p>Animals from the original study were genotyped for 47 SNP within or near the gene boundaries of the three candidate genes. Sixteen markers in the <it>NCAPG-LCORL </it>locus displayed significant association with both ADFI and ADG even after stringent correction for multiple testing (P ≤ 005). These markers were evaluated for their effects on meat and carcass traits. The alleles associated with higher ADFI and ADG were also associated with higher hot carcass weight (HCW) and ribeye area (REA), and lower adjusted fat thickness (AFT). A reduced set of markers was genotyped on a separate, crossbred population including genetic contributions from 14 beef cattle breeds. Two of the markers located within the <it>LCORL </it>gene locus remained significant for ADG (P ≤ 0.04).</p> <p>Conclusions</p> <p>Several markers within the <it>NCAPG-LCORL </it>locus were significantly associated with feed intake and body weight gain phenotypes. These markers were also associated with HCW, REA and AFT suggesting that they are involved with lean growth and reduced fat deposition. Additionally, the two markers significant for ADG in the validation population of animals may be more robust for the prediction of ADG and possibly the correlated trait ADFI, across multiple breeds and populations of cattle.</p>http://www.biomedcentral.com/1471-2156/12/103 |
| spellingShingle | Lindholm-Perry Amanda K Sexten Andrea K Kuehn Larry A Smith Timothy PL King D Andy Shackelford Steven D Wheeler Tommy L Ferrell Calvin L Jenkins Thomas G Snelling Warren M Freetly Harvey C Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle BMC Genetics |
| title | Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle |
| title_full | Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle |
| title_fullStr | Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle |
| title_full_unstemmed | Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle |
| title_short | Association, effects and validation of polymorphisms within the <it>NCAPG </it>- <it>LCORL </it>locus located on BTA6 with feed intake, gain, meat and carcass traits in beef cattle |
| title_sort | association effects and validation of polymorphisms within the it ncapg it it lcorl it locus located on bta6 with feed intake gain meat and carcass traits in beef cattle |
| url | http://www.biomedcentral.com/1471-2156/12/103 |
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