Linkage-disequilibrium approach for detecting genetic inter actions between extracellular and membrane molecules
| Project/Area Number |
17570087
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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 |
Biodiversity/Systematics
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| Research Institution | National Institute of Genetics |
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Principal Investigator |
TAKANO Toshiyuki National Institute of Genetics, Department of Population Genetics, Associate Professor (90202150)
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| Co-Investigator(Kenkyū-buntansha) |
INOMATA Nobuyuki Kyushu University, Faculty of Sciences, Assistant Professor (20301335)
渡邊 豊 国立遺伝学研究所, 集団遺伝研究系, 博士研究員 (90419854)
高橋 一男 国立遺伝学研究所, 集団遺伝研究系, 博士研究員 (10450199)
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| Project Period (FY) |
2005 – 2007
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| Project Status |
Completed (Fiscal Year 2007)
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| Budget Amount *help |
¥3,700,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥300,000)
Fiscal Year 2007: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2006: ¥1,200,000 (Direct Cost: ¥1,200,000)
Fiscal Year 2005: ¥1,200,000 (Direct Cost: ¥1,200,000)
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| Keywords | Linkage disequilibrium / Gene interaction / Drosophila / Natural selection / Chemoreceptor |
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| Research Abstract |
Many quantitative characters including complex genetic diseases are likely subject to truncation selection or other forms of multi-locus selection; however, direct measure of selection in natural populations remains difficult Multi-locus selection with epistasis can generate linkage disequilibrium from which we can infer the pattern and degree of selection and then functional connections of genes. Based on this idea, we studied polymorphisms in natural populations of D. melanogaster and obtained the following findings: 1) We found a large number of inter-locus nonrandom associations between polymorphisms in Drosophila chemoreceptor genes and a significant excess of haplotypes composed of one frequent and one less common allele in replacement but not silent polymorphisms. These results implied that multi-locus selection plays a significant role in shaping within-species variation, particularly to reduce frequencies of replacement polymorphisms that are slightly deleterious in combination with other polymorphisms. 2) We developed a new test to detect viability selection over a single generation. In this test, one specific type of chromosomes is chosen as a reference, while all other chromosomes are designated as focal. The test compares measures of variation between two groups of focal chromosomes: those found in reference/focal heterozygous individuals, and those found in focal/focal homozygotes. Currently acting selection can cause differences in some measures of variation. We applied this test to typing data for In (2L)t inversion polymorphism and X-linked chemoreceptor genes in Drosophila melanogaster populations and found evidence for selection. This new test and population genetics measures for linkage disequilibrium shed light on how often strong selection is operating in extant populations and serve to identify functional connections of genes.
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Report
(4 results)
Research Products
(52 results)
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[Journal Article] A new test for detecting ongoing selection.2008
Author(s)
Inomata, N., Itoh, M., Kondo, R., Ohshima, M., Inoue, Y., Takano-Shimizu, T.
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Journal Title
Genetica 133
Pages: 321-334
Description
「研究成果報告書概要(欧文)」より
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[Presentation] Linkage disequilibrium analyses of synonymous and replacement polymorphisms in Drosophila chemoreceptor genes.2007
Author(s)
Kondo, R., Oshima, M., Yoshifuji, Y., Inomata, N., Itoh, M., Takano-Shimizu, T.
Organizer
48th Annual Drosophila Research Conference
Place of Presentation
Philadelphia, Pennsylvania
Description
「研究成果報告書概要(欧文)」より
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[Presentation] A population-genetics approach to construct gene network by using Drosophila.2006
Author(s)
Itoh, M., Nanba, N., Hasegawa, M., Inomata, N., Kondo, R.Takano-Shimizu, T.
Organizer
Joint meeting of Kyushu and Kansai Branches of The Japanese Society of Sericultural Science
Place of Presentation
Fukuoka
Description
「研究成果報告書概要(欧文)」より
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[Presentation] Linkage disequilibrium patterns of synoymous and replacement polymorphisms in Drosophila chemoreceptor genes.2006
Author(s)
Kondo, R., Oshima, M., Yoshifuji, Y., Inomata, N., Itoh, M., Takano-Shimizu, T.
Organizer
The 78 Annual Meeting of the Genetic Society of Japan
Place of Presentation
Tsukuba
Description
「研究成果報告書概要(欧文)」より
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[Presentation] Seasonal changes in the scale of long-distance linkage disequilibrium and population structure in Drosophila melanogaster.2005
Author(s)
Itoh, M., Nanba, N., Hasegawa, M., Inomata, N., Kondo, R., Ohshima, M., Takano-Shimizu, T.
Organizer
The 77th Annual Meeting of the Genetic Society of Japan
Place of Presentation
Tokyo
Description
「研究成果報告書概要(欧文)」より
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[Presentation] Detecting single-generation selection acting on inversion polymorphism in Drosophila.2005
Author(s)
Inomata, N., Itoh, M., Kondo, R., Ohshima, M., Inoue, Y., Takano-Shimizu, T.
Organizer
The 77th Annual Meeting of the Genetic Society of Japan
Place of Presentation
Tokyo
Description
「研究成果報告書概要(欧文)」より
Related Report
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