Detection of natural selection in Japanese population by analyzing distribution of polymorphisms
| Project/Area Number |
15510160
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| Research Category |
Grant-in-Aid for Scientific Research (C)
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| Allocation Type | Single-year Grants |
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| Section | 一般 |
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| Research Field |
基礎ゲノム科学
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| Research Institution | KYUSHU UNIVERSITY |
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Principal Investigator |
TAHIRA Tomoko Kyushu University, Medical Institute of Bloregulation, Research Associate, 生体防御医学研究所, 助手 (50155230)
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| Co-Investigator(Kenkyū-buntansha) |
HAYASHI Kenshi Kyushu University, Medical Institute of Bloregulation, Professor, 生体防御医学研究所, 教授 (00019671)
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| Project Period (FY) |
2003 – 2004
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| Project Status |
Completed (Fiscal Year 2004)
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| Budget Amount *help |
¥3,700,000 (Direct Cost: ¥3,700,000)
Fiscal Year 2004: ¥1,200,000 (Direct Cost: ¥1,200,000)
Fiscal Year 2003: ¥2,500,000 (Direct Cost: ¥2,500,000)
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| Keywords | polymorphism / SSCP / natural selection |
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| Research Abstract |
We attempted to detect signature of natural selection that shaped patterns of genetic variation among populations, because it provides important information for the efficient application of genome science to biomedical research. For this purpose, we utilized capillary-based SSCP system that quantified SNP allele frequencies in pooled DNA. We quantified allele frequencies of approximately 4000 SNPs in Japanese pools and Caucasian pools. The levels of F_<ST>, a marker of genetic differentiation, were calculated from these values using Weir's unbiased estimator. SNPs that showed significantly different allele frequencies (F_<ST>>0.5) between two groups were approximately 0.5% of total, and were located in various loci. We focused on these loci and further characterized SNPs in the surrounding regions (40 regions) by estimating allele frequencies in Japanese, Caucasian and African-American. We combined these new data with a recently available dataset of SNPs from a public database. Locus-specific diversities of genetic differentiation were observed. The SNPs located near POU2F3 locus on chromosome 11q23 showed the highest values of Fsr between Japanese and Caucasian. The SNPs located near GATM locus on chromosome 15q15 also showed the high F_<ST> between Japanese and Caucasian. In these regions, F_<ST> value between African-American and Caucasian were also high for some SNPs. On the other hand, in the region near NUP88-C1QBP locus on chromosome 17p13,the values of F_<ST> between Japanese and other two groups were high while F_<ST> values between African-American and Caucasian were low. To detect population-specific selection of haplotypes, we plan to perform further bioinformatical analysis using genome-wide genotyping data of four populations available from HAPMAP project.
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Report
(3 results)
Research Products
(17 results)
