A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken
Shank skin color of Korean native chicken (KNC) shows large color variations. It varies from white, yellow, green, bluish or grey to black, whilst in the majority of European breeds the shanks are typically yellow-colored. Three shank skin color-related traits (i.e., lightness [L*], redness [a*], an...
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Asian-Australasian Association of Animal Production Societies
2016-11-01
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doaj-3719803d673143a68d891baa85cdd5192020-11-25T00:49:16ZengAsian-Australasian Association of Animal Production SocietiesAsian-Australasian Journal of Animal Sciences1011-23671976-55172016-11-0129111555156110.5713/ajas.16.018323583A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native ChickenS. Jin0J. H. Lee1D. W. Seo2M. Cahyadi3N. R. Choi4K. N. Heo5C. Jo6H. B. Park7 Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, Korea Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, Korea Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, Korea Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, Korea Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, Korea Poultry Research Institute, National Institute of Animal Science, Rural Development Administration, Cheonan 31000, Korea Department of Agricultural Biotechnology, Center for Food and Bioconvergence, and Research Institute for Agriculture and Life Science, Seoul National University, Seoul 08826, Korea Division of Animal and Dairy Science, Chungnam National University, Deajeon 34134, KoreaShank skin color of Korean native chicken (KNC) shows large color variations. It varies from white, yellow, green, bluish or grey to black, whilst in the majority of European breeds the shanks are typically yellow-colored. Three shank skin color-related traits (i.e., lightness [L*], redness [a*], and yellowness [b*]) were measured by a spectrophotometer in 585 progeny from 68 nuclear families in the KNC resource population. We performed genome scan linkage analysis to identify loci that affect quantitatively measured shank skin color traits in KNC. All these birds were genotyped with 167 DNA markers located throughout the 26 autosomes. The SOLAR program was used to conduct multipoint variance-component quantitative trait locus (QTL) analyses. We detected a major QTL that affects b* value (logarithm of odds [LOD] = 47.5, p = 1.60×10−49) on GGA24 (GGA for Gallus gallus). At the same location, we also detected a QTL that influences a* value (LOD = 14.2, p = 6.14×10−16). Additionally, beta-carotene dioxygenase 2 (BCDO2), the obvious positional candidate gene under the linkage peaks on GGA24, was investigated by the two association tests: i.e., measured genotype association (MGA) and quantitative transmission disequilibrium test (QTDT). Significant associations were detected between BCDO2 g.9367 A>C and a* (PMGA = 1.69×10−28; PQTDT = 2.40×10−25). The strongest associations were between BCDO2 g.9367 A>C and b* (PMGA = 3.56×10−66; PQTDT = 1.68×10−65). However, linkage analyses conditional on the single nucleotide polymorphism indicated that other functional variants should exist. Taken together, we demonstrate for the first time the linkage and association between the BCDO2 locus on GGA24 and quantitatively measured shank skin color traits in KNC.http://www.ajas.info/upload/pdf/ajas-29-11-1555.pdfLinkage and AssociationQuantitative Trait LocusShank Skin ColorKorean Native Chicken |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
S. Jin J. H. Lee D. W. Seo M. Cahyadi N. R. Choi K. N. Heo C. Jo H. B. Park |
spellingShingle |
S. Jin J. H. Lee D. W. Seo M. Cahyadi N. R. Choi K. N. Heo C. Jo H. B. Park A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken Asian-Australasian Journal of Animal Sciences Linkage and Association Quantitative Trait Locus Shank Skin Color Korean Native Chicken |
author_facet |
S. Jin J. H. Lee D. W. Seo M. Cahyadi N. R. Choi K. N. Heo C. Jo H. B. Park |
author_sort |
S. Jin |
title |
A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken |
title_short |
A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken |
title_full |
A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken |
title_fullStr |
A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken |
title_full_unstemmed |
A Major Locus for Quantitatively Measured Shank Skin Color Traits in Korean Native Chicken |
title_sort |
major locus for quantitatively measured shank skin color traits in korean native chicken |
publisher |
Asian-Australasian Association of Animal Production Societies |
series |
Asian-Australasian Journal of Animal Sciences |
issn |
1011-2367 1976-5517 |
publishDate |
2016-11-01 |
description |
Shank skin color of Korean native chicken (KNC) shows large color variations. It varies from white, yellow, green, bluish or grey to black, whilst in the majority of European breeds the shanks are typically yellow-colored. Three shank skin color-related traits (i.e., lightness [L*], redness [a*], and yellowness [b*]) were measured by a spectrophotometer in 585 progeny from 68 nuclear families in the KNC resource population. We performed genome scan linkage analysis to identify loci that affect quantitatively measured shank skin color traits in KNC. All these birds were genotyped with 167 DNA markers located throughout the 26 autosomes. The SOLAR program was used to conduct multipoint variance-component quantitative trait locus (QTL) analyses. We detected a major QTL that affects b* value (logarithm of odds [LOD] = 47.5, p = 1.60×10−49) on GGA24 (GGA for Gallus gallus). At the same location, we also detected a QTL that influences a* value (LOD = 14.2, p = 6.14×10−16). Additionally, beta-carotene dioxygenase 2 (BCDO2), the obvious positional candidate gene under the linkage peaks on GGA24, was investigated by the two association tests: i.e., measured genotype association (MGA) and quantitative transmission disequilibrium test (QTDT). Significant associations were detected between BCDO2 g.9367 A>C and a* (PMGA = 1.69×10−28; PQTDT = 2.40×10−25). The strongest associations were between BCDO2 g.9367 A>C and b* (PMGA = 3.56×10−66; PQTDT = 1.68×10−65). However, linkage analyses conditional on the single nucleotide polymorphism indicated that other functional variants should exist. Taken together, we demonstrate for the first time the linkage and association between the BCDO2 locus on GGA24 and quantitatively measured shank skin color traits in KNC. |
topic |
Linkage and Association Quantitative Trait Locus Shank Skin Color Korean Native Chicken |
url |
http://www.ajas.info/upload/pdf/ajas-29-11-1555.pdf |
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