Study on the genetic information carried in DNA conformation and physical properties
| Project/Area Number |
18570165
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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 |
Molecular biology
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| Research Institution | Waseda University |
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Principal Investigator |
OHYAMA Takashi Waseda University, Faculty of Education and Integrated Arts and Sciences, Professor (60268513)
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| Co-Investigator(Kenkyū-buntansha) |
MITANI Tasuku Kinki University, Institute of Aduvanced Technology, Associate Professor (10322265)
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| Project Period (FY) |
2006 – 2007
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| Project Status |
Completed (Fiscal Year 2007)
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| Budget Amount *help |
¥3,950,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2007: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Fiscal Year 2006: ¥2,000,000 (Direct Cost: ¥2,000,000)
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| Keywords | genetic information / DNA conformation / genome / Physical properties of DNA / chromatin / gene expression |
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| Research Abstract |
The T20 is a synthetic 180 by bent DNA fragment that mimics a part of left-handed supercoils. T20 can activate transcription by organizing local chromatin structure in HeLa cells. This study investigated whether T20 could activate transcription in the genome of mouse ES cells. T20 was found to activate the adjacent promoter even in the ES cells. Furthermore, the function of T20 was maintained even when the cells were differentiated into hepatocytes. We also investigated the locus of the reporter by using lacO/lacI-GFP transgene detection system. We constructed a tandem-repeat of the lac operator sequences(64 repeats), ligated it to the reporter construct, and integrated the resulting construct into the genome of ES cells. The T20-containing reporter was found located in the periphery of the nucleus.
II. Genetic information carried in physical properties of DNA
We made a program that can calculate the flexibility profile of a given DNA. Using it, we investigated the flexibility profiles of all of the recombination hot spots of Saccharomyces cerevisiae chromosome 3. These sites were indicated to be slightly more flexible when compared to the average flexibility of the yeast genome. In addition, we found that the exons are more flexible than the introns. This difference may function as a signal for some proteins to distinguish these two regions.
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Report
(3 results)
Research Products
(53 results)
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[Journal Article] Structural property of DNA that migrates faster in gel electrophoresis, as deduced by CD spectroscopy.2006
Author(s)
Matsugami, A., Tani, K., Ouhashi, K., Uesugi, S., Morita, M., Ohyama, T., Katahira, M.
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Journal Title
Nucleosides, Nucleotides and Nucleic Acids 25
Pages: 417-425
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Journal Article] A designed curved DNA segment that is a remarkable activator of eukarvotic transcription.2006
Author(s)
Sumida, N., Nishikawa, J., Kishi, H., Amano, M., Furuya, T., Sonobe, H., Ohyama, T.
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Journal Title
FEBS J. 273
Pages: 5691-5702
Description
「研究成果報告書概要(欧文)」より
Related Report
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[Journal Article] Genetic information carried in DNA conformation and properties.2006
Author(s)
Ohyama, T., Sumida, N., Tanase, J., Inoue, S., Okabe, T.
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Journal Title
DNA Structure, Chromatin and Gene Expression (Kiyama, R. & Shimizu, M., eds.), Transworld Research Network(Kerala)
Pages: 71-84
Description
「研究成果報告書概要(欧文)」より
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[Presentation] ヒトゲノムの機械的特性地図2007
Author(s)
大山 隆
Organizer
特定領域研究「核ダイナミクス」第4回班会議
Place of Presentation
湯沢
Year and Date
2007-07-02
Description
「研究成果報告書概要(和文)」より
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[Presentation] How genomic DNA is functionally folded in a nucleus.2007
Author(s)
Ohyama, T., Sumida, N., Inthue, S., Tanase, J., Kimura, H. and Miura, M.
Organizer
International Symposium Functional Organization of the Nucleus
Place of Presentation
Awaji
Year and Date
2007-01-11
Description
「研究成果報告書概要(欧文)」より
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[Presentation] クロマチン工学の開拓2006
Author(s)
大山 隆
Organizer
第6回細胞核ダイナミクス研究会
Place of Presentation
熊本
Year and Date
2006-05-17
Description
「研究成果報告書概要(和文)」より
Related Report
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[Book] DNA structure, Chromatin and Gene Expression2006
Author(s)
Ohyama, T., Sumida, N., Tanase, J., Inoue, S., Okabe T.
Publisher
Transworld Research Network (kerala) Editors : Kiyama, R. and Shimizu, M.
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