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KMID : 1025520070490050559
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Journal of Animal Science and Technology
2007 Volume.49 No. 5 p.559 ~ p.568
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Detection of Copy Number Variation of the KIT Gene in the Landrace Breed using an Quantitative Oligonucleotide Ligation Assay (qOLA)
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Seo Bo-Yeong
Kim Jae-Hwan
Nahm D. W.
Yoo C. K.
Lee Sang-Ho
Lee J.-B.
Lim Hyun-Tae
Jung E. J.
Cho In-Cheol
Heo Kang-Nyeong
Jeon Jin-Tae
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Abstract
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Recently, copy number variations (CNV) of genes or genomic segments have been intensively studied and various analysis methods have been developed. In this study, quantitative oligonucleotide ligation assay (qOLA) was applied to investigate CNV of KIT gene in the Landrace breed. A combined assay using qOLA and pyrosequencing, 6 genotype classes, I1/I1 or I3/i (IBe), I1/I2 or I3/IP, I1/I3, I1/IP or I2/i (IBe), I2/I2and I2/IP, were identified from 44 Landrace pigs. Genotype assignment using grouping features of measurements on a scatter plot showed 100% agreement with those using a statistical assignment by PROC FASTCLUS procedure implemented in the SAS package. Two versions (3100 and 3130) of ABI sequencers gave the same genotyping results, indicating there was no influence on qOLA by different versions of instrument, however, the means of standard deviation and coefficient of variation from the qOLA on a ABI 3130 (2.33 and 4.10) was lower than those from the qOLA on a ABI 3100 (2.67 and 4.81). Effect of proteinase K treatment on the PCR product followed by qOLA was very clear because noise peaks were disappeared and the observed ration fit better to the reference ratio corresponding to each genotype.
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KEYWORD
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Copy number variation, KiT, Landrace, OLA
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