Experimental evolution of Saccharomyces cerevisiae
| Project/Area Number |
15KT0147
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| Research Category |
Grant-in-Aid for Scientific Research (C)
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| Allocation Type | Multi-year Fund |
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| Section | 特設分野 |
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| Research Field |
Constructive Systems Biology
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| Research Institution | The University of Tokyo |
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Principal Investigator |
Nakaoka Shinji 東京大学, 生産技術研究所, 派遣研究員 (30512040)
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| Co-Investigator(Kenkyū-buntansha) |
川上 英良 国立研究開発法人理化学研究所, 科学技術ハブ推進本部, ユニットリーダー (30725338)
細田 一史 大阪大学, 未来戦略機構, 特任准教授(常勤) (30515565)
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| Project Period (FY) |
2015-07-10 – 2018-03-31
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| Project Status |
Completed (Fiscal Year 2017)
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| Budget Amount *help |
¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2017: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2016: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2015: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
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| Keywords | 人工培養系 / 数理モデル / 進化のダイナミクス / 複合オミクス解析 / 人工共培養系 |
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| Outline of Final Research Achievements |
Despite the importance of contingent effects on the evolutionary process of living systems, theoretical considerations and experimental validations have not been fully investigated yet. In this research, we aimed to investigate contingent effects by developing an artificial experimental evolution system of Saccharomyces cerevisiae (S. cerevisiae) cocultured with Escherichia coli (E. coli). De novo mutations that might occur during replications of S Cerevisiae and E. coli are identified by genomic sequences. Gene expression profiles are measured by transcriptomics. These omics datasets are then integrated into a multi-scale mathematical model representing intracellular-molecular and intercellular population dynamics. Our theoretical approach combined with validation by experimental evolution systems would provide a key to understand the role of emerging and contingent property on evolutionary processes.
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Report
(4 results)
Research Products
(29 results)
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[Journal Article] HIV-1 competition experiments in humanized mice show that APOBEC3H imposes selective pressure and promotes virus adaptation.2017
Author(s)
Yusuke Nakano, Naoko Misawa, Guillermo Juarez-Fernandez, Miyu Moriwaki, Shinji Nakaoka, Takaaki Funo, Eri Yamada, Andrew Soper, Rokusuke Yoshikawa, Diako Ebrahimi, Yuuya Tachiki, Shingo Iwami, Reuben S. Harris, Yoshio Koyanagi & Kei Sato
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Journal Title
PLOS Pathogens
Volume: 13
Issue: 5
Pages: 31-31
DOI
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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[Journal Article] Human-specific adaptations in Vpu conferring anti-tetherin activity are critical for efficient early HIV-1 replication in vivo.2017
Author(s)
Eri Yamada, Shinji Nakaoka, Lukas Klein, Elisabeth Reith, Simon Langer, Kristina Hopfensperger, Shingo Iwami, Gideon Schreiber, Frank Kirchhoff, Yoshio Koyanagi, Daniel Sauter & Kei Sato
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Journal Title
Cell Host & Microbe
Volume: 23
Issue: 1
Pages: 110-120
DOI
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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[Journal Article] Network analyses based on comprehensive molecular interaction maps reveal robust control structures in yeast stress response pathways2016
Author(s)
Eiryo Kawakami, Vivek K Singh, Kazuko Matsubara, Takashi Ishii, Yukiko Matsuoka, Takeshi Hase,Priya Kulkarni, Kenaz Siddiqui, Janhavi Kodilkar, Nitisha Danve, Indhupriya Subramanian, Manami Katoh, Yuki Shimizu-Yoshida, Samik Ghosh, Abhay Jere & Hiroaki Kitano
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Journal Title
npj Systems Biology and Applications
Volume: 2
Issue: 1
Pages: 15018-15018
DOI
Related Report
Peer Reviewed / Open Access / Int'l Joint Research
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