Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP
In this study, we attempted to use amplified fragment length polymorphism (AFLP) in combination with selective genotyping to detect loci that affected shank length and body weight at 10 weeks of age in Japanese quail (Coturnix japonica). A total of 88 primer pairs were used in AFLP analyses of 10 a...
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| Format: | Article |
| Language: | English |
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Japan Poultry Science Association
2012-01-01
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| Series: | The Journal of Poultry Science |
| Subjects: | |
| Online Access: | https://www.jstage.jst.go.jp/article/jpsa/49/1/49_011047/_pdf/-char/en |
| _version_ | 1797816163179167744 |
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| author | Takeshi Shimogiri Toshimasa Yamakawa Hirofumi Isobe Hla Hla Moe Tomohito Hiraguchi Kotaro Kawabe Shin Okamoto Satoru Okamoto Yoshizane Maeda |
| author_facet | Takeshi Shimogiri Toshimasa Yamakawa Hirofumi Isobe Hla Hla Moe Tomohito Hiraguchi Kotaro Kawabe Shin Okamoto Satoru Okamoto Yoshizane Maeda |
| author_sort | Takeshi Shimogiri |
| collection | DOAJ |
| description | In this study, we attempted to use amplified fragment length polymorphism (AFLP) in combination with selective genotyping to detect loci that affected shank length and body weight at 10 weeks of age in Japanese quail (Coturnix japonica). A total of 88 primer pairs were used in AFLP analyses of 10 and 13 males with the longest and shortest shank lengths, respectively, from an F2 intercross population derived from lines differentiated by large and small body size (LL and SS, respectively). Ten AFLP bands differed strikingly in frequency between the two groups (P<0.005). Genotyping of the 10 bands in 10 females with the longest shank lengths and 10 with the shortest revealed that one band differed significantly in frequency between the two groups for both males and females (P<0.05). This fragment shared 86.4% identity with a 361-bp sequence of chicken chromosome 1 located from position 51,672,791 to 51,673,152, as determined by chicken BLAT search. Polymerase chain reaction and sequence analysis revealed that a 190-bp insertion/deletion was the causal polymorphism. Genotypes of this indel marker were associated significantly with shank length and body weight in the F2 intercross population (P<0.005). The insertion allele had a positive effect on both traits. To confirm the association of this marker with the two traits, we conducted association analysis in a population derived from heterozygous quails of another line. In this analysis, the indel genotypes showed no significant association with shank length or male body weight (P>0.05), but did show a significant association with female body weight (P<0.05). |
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| institution | Directory Open Access Journal |
| issn | 1346-7395 1349-0486 |
| language | English |
| last_indexed | 2024-03-13T08:33:37Z |
| publishDate | 2012-01-01 |
| publisher | Japan Poultry Science Association |
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| series | The Journal of Poultry Science |
| spelling | doaj.art-1bc8b84dae964aa5841d6a37927b06232023-05-31T01:10:14ZengJapan Poultry Science AssociationThe Journal of Poultry Science1346-73951349-04862012-01-0149151110.2141/jpsa.011047jpsaDetection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLPTakeshi Shimogiri0Toshimasa Yamakawa1Hirofumi Isobe2Hla Hla Moe3Tomohito Hiraguchi4Kotaro Kawabe5Shin Okamoto6Satoru Okamoto7Yoshizane Maeda8Faculty of Agriculture, Kagoshima University, JapanFaculty of Agriculture, Kagoshima University, JapanFaculty of Agriculture, Kagoshima University, JapanFaculty of Agriculture, Kagoshima University, JapanFaculty of Agriculture, Kagoshima University, JapanFrontier Science Research Center, Kagoshima University, JapanFaculty of Agriculture, Kagoshima University, JapanProfessor Emeritus, Saga University, JapanFaculty of Agriculture, Kagoshima University, JapanIn this study, we attempted to use amplified fragment length polymorphism (AFLP) in combination with selective genotyping to detect loci that affected shank length and body weight at 10 weeks of age in Japanese quail (Coturnix japonica). A total of 88 primer pairs were used in AFLP analyses of 10 and 13 males with the longest and shortest shank lengths, respectively, from an F2 intercross population derived from lines differentiated by large and small body size (LL and SS, respectively). Ten AFLP bands differed strikingly in frequency between the two groups (P<0.005). Genotyping of the 10 bands in 10 females with the longest shank lengths and 10 with the shortest revealed that one band differed significantly in frequency between the two groups for both males and females (P<0.05). This fragment shared 86.4% identity with a 361-bp sequence of chicken chromosome 1 located from position 51,672,791 to 51,673,152, as determined by chicken BLAT search. Polymerase chain reaction and sequence analysis revealed that a 190-bp insertion/deletion was the causal polymorphism. Genotypes of this indel marker were associated significantly with shank length and body weight in the F2 intercross population (P<0.005). The insertion allele had a positive effect on both traits. To confirm the association of this marker with the two traits, we conducted association analysis in a population derived from heterozygous quails of another line. In this analysis, the indel genotypes showed no significant association with shank length or male body weight (P>0.05), but did show a significant association with female body weight (P<0.05).https://www.jstage.jst.go.jp/article/jpsa/49/1/49_011047/_pdf/-char/enaflpbody weightindeljapanese quailselective genotypingshank length |
| spellingShingle | Takeshi Shimogiri Toshimasa Yamakawa Hirofumi Isobe Hla Hla Moe Tomohito Hiraguchi Kotaro Kawabe Shin Okamoto Satoru Okamoto Yoshizane Maeda Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP The Journal of Poultry Science aflp body weight indel japanese quail selective genotyping shank length |
| title | Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP |
| title_full | Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP |
| title_fullStr | Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP |
| title_full_unstemmed | Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP |
| title_short | Detection of a Polymorphism Associated with Shank Length and Body Weight in Japanese Quail (Coturnix japonica) by AFLP |
| title_sort | detection of a polymorphism associated with shank length and body weight in japanese quail coturnix japonica by aflp |
| topic | aflp body weight indel japanese quail selective genotyping shank length |
| url | https://www.jstage.jst.go.jp/article/jpsa/49/1/49_011047/_pdf/-char/en |
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