Construction of an experimental model system that mimic the evolution of early life

• Project/Area Number: 23687034
• Research Category: Grant-in-Aid for Young Scientists (A)
• Allocation Type: Single-year Grants
• Research Field: Evolutionary biology
• Research Institution: Osaka University
• Principal Investigator: ICHIHASHI Norikazu 大阪大学, 情報科学研究科, 准教授 (20448096)
• Project Period (FY): 2011-04-01 – 2014-03-31
• Project Status: Completed (Fiscal Year 2013)
• Budget Amount: ¥23,400,000 (Direct Cost: ¥18,000,000、Indirect Cost: ¥5,400,000); Fiscal Year 2013: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000); Fiscal Year 2012: ¥7,540,000 (Direct Cost: ¥5,800,000、Indirect Cost: ¥1,740,000); Fiscal Year 2011: ¥8,320,000 (Direct Cost: ¥6,400,000、Indirect Cost: ¥1,920,000)
• Keywords: 進化 / 人工ゲノム / 実験進化 / RNAゲノム / ダーウィン進化 / 人工細胞 / 生命の起源 / 自己複製 / 無細胞翻訳系 / エマルション

Research Abstract

The evolutionary process from the assembly of chemical compounds to the present-day life is largely unknown. One of the major obstacles is the lack of the experimental model. In this project, we have succeeded in the construction of an experimental model that functionally mimic the early life and have the ability of autonomous evolution. This system would be useful for the experimental investigation of the evolutionary process from a simple genome replication system to a present-day complex life system.

Research Products

• [Journal Article] Effects of ribosomes on the kinetics of Qb replication (2014)
  • Author(s): Usui, K., Ichihashi, N., Kazuta, Y., Matsuura, T., Yomo, T
  • Journal Title: FEBS Letters Volume: 588 Issue: 1 Pages: 117-123
  • DOI: 10.1016/j.febslet.2013.11.018
  • Peer Reviewed
• [Journal Article] Darwinian evolution in a translation-coupled RNA replication system within a cell-like compartment (2013)
  • Author(s): Ichihashi, N., Usui, K., Kazuta, Y., Sunami, T., Matsuura T., Yomo, T
  • Journal Title: Nature Communications Volume: 4 Issue: 1 Pages: 1-7
  • DOI: 10.1038/ncomms3494
  • NAID: 120006831817
  • Peer Reviewed
• [Journal Article] Kinetic model of double-stranded RNA formation during long RNA replication by Qβreplicase (2013)
  • Author(s): Usui, K., Ichihashi, N., Kazuta, Y., Matsuura, T., Yomo, T
  • Journal Title: FEBS Letters Volume: 587 Issue: 16 Pages: 2565-2571
  • DOI: 10.1016/j.febslet.2013.06.033
  • Peer Reviewed
• [Journal Article] Probabilistic model based error correction in a set of various mutant sequences analyzed by next-generation sequencing. (2013)
  • Author(s): Takuyo Aita, Norikazu Ichihashi, Tetsuya Yomo.
  • Journal Title: Computational Biology and Chemistry Volume: 47 Pages: 221-230
  • Peer Reviewed
• [Journal Article] A controllable gene expression system in liposomes that includes a positive feedback loop. (2013)
  • Author(s): Kobori S
  • Journal Title: Mol Biosyst. Volume: 印刷中
  • Peer Reviewed
• [Journal Article] Effects of compartment size on the kinetics of intracompartmental multimeric orotein synthesis (2012)
  • Author(s): Matsuura, T., Hosoda, K., Kazuta, Y., Ichihashi, N., Suzuki, H., Yomo, T
  • Journal Title: ACS Synthetic Biology Volume: 1 Issue: 9 Pages: 431-437
  • DOI: 10.1021/sb300041z
  • Peer Reviewed
• [Journal Article] Kinetic analysis of aptazyme-regulated gene expression in a cell-fiee translation system:modeling of ligand-dependent and -independent expression (2012)
  • Author(s): 小堀 峻吾
  • Journal Title: RNA Volume: 18 Issue: 8 Pages: 1458-1465
  • DOI: 10.1261/rna.032748.112
  • Peer Reviewed
• [Journal Article] α-Complementation in an artificial genome replication system in liposomes (2012)
  • Author(s): Nishiyama, K., Ichihashi, N., Matsuura, T., Kazuta, Y., Yomo, T
  • Journal Title: Chembiochem Volume: 13 Issue: 18 Pages: 2701-2706
  • DOI: 10.1002/cbic.201200586
  • Peer Reviewed
• [Journal Article] Importance of parasite RNA species repression for prolonged translation-coupled RNA self-replication (2012)
  • Author(s): Y Bansho, Y., Ichihashi, N., Kazuta, Y., Matsuura, T., Suzuki, H., Yomo, T
  • Journal Title: Chemistry and Biology Volume: 19 Issue: 4 Pages: 478-487
  • DOI: 10.1016/j.chembiol.2012.01.019
  • Peer Reviewed
• [Journal Article] Construction of Gene Screening System Using Giant Unilamellar Liposomes and Fluorescence Activated Cell Sorter (2012)
  • Author(s): T. Nishikawa、T. Sunami, T. Matsuura, N. Ichihashi, T. Yomo
  • Journal Title: Analytical Chemistry Volume: 84 Issue: 11 Pages: 5017-5024
  • DOI: 10.1021/ac300678w
  • Peer Reviewed
• [Presentation] The International Astrobiology Workshop 2013 (2013)
  • Author(s): Ichihashi, N
  • Organizer: as the Japan Astrobiology Network Annual Meeting #6
  • Place of Presentation: JAXA/ISAS,Sagamihara, Japan
• [Presentation] Darwinian Evolution in a Translation-Coupled RNA Replication System Within a Cell-Like Compartment. (2013)
  • Author(s): Norikazu Ichihashi, Kimihito Usui, Tetsuya Yomo.
  • Organizer: The International Astrobiology Workshop 2013(as the Japan Astrobiology Network Annual Meeting #6)
  • Place of Presentation: JAXA/ISAS, Sagamihara, Japan
  • Invited
• [Presentation] 人工自己複製システムにおける利己的ＲＮＡの出現と耐性の進化 (2013)
  • Author(s): 市橋伯一, 四方哲也
  • Organizer: 第36回日本分子生物学会年会
  • Place of Presentation: 神戸ポートアイランド
  • Invited
• [Presentation] 次世代シーケンサーを用いた人工細胞モデルにおけるゲノムＲＮＡの進化プロセスの解析 (2013)
  • Author(s): 市橋伯一, 中村昇太 , 四方哲也
  • Organizer: 第51回日本生物物理学会年会
  • Place of Presentation: 国立京都国際会館
• [Presentation] PURE SYSTEMを用いた人工RNAゲノムの自己複製・進化システムの構築 (2013)
  • Author(s): 市橋伯一, 臼井公人, 四方哲也
  • Organizer: 第８回無細胞生命科学研究会
  • Place of Presentation: 新潟大学中央図書館
• [Presentation] Continuous RNA amplification with self-encoded replication system. (2012)
  • Author(s): Kimihito Usui, et al
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-12-14
• [Presentation] Investigation on the mechanism of double strand formation during RNA replication. (2012)
  • Author(s): Yohei Uegami, et al
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-12-13
• [Presentation] In Vitro Compartmentalization Using Unilamellar Lipsomes for Gene Screening. (2012)
  • Author(s): Takehiro Nishikawa, et al
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-12-13
• [Presentation] Directed evolution of a self-encoding system using giant liposome. (2012)
  • Author(s): Takeshi Sunam, et al
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-12-13
• [Presentation] アプタザイムを用いた外部応答するリアクターの構築 (2012)
  • Author(s): 小堀峻吾, 他
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-12-13
• [Presentation] Kinetic Analysis of Aptazyme-regulated Gene Expression in a Cell-free Translation System. (2012)
  • Author(s): Shungo Kobori, et al
  • Organizer: RNA 2012 PROGRAM & ABSTRACTS The 17th Annual Meeting
  • Place of Presentation: Michigan, USA
  • Year and Date: 2012-06-01
• [Presentation] Kinetic Analysis of the Double-stranded RNA Formation in Qβ RNA Replication. (2012)
  • Author(s): Kimihito Usui, et al
  • Organizer: RNA 2012 PROGRAM & ABSTRACTS The 17th Annual Meeting
  • Place of Presentation: Michigan, USA
  • Year and Date: 2012-05-31
• [Presentation] リボソームを反応場とする遺伝子スクリーニングによる活性型グルクロニダーゼの探索 (2012)
  • Author(s): 西川雄大, 他
  • Organizer: 第61回高分子学会年次大会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2012-05-30
• [Presentation] The Thirteenth International Conference on the Synthesis and Simulation of Living Systems (2012)
  • Author(s): Ichihashi, N
  • Organizer: Artificial Life XIII
  • Place of Presentation: Michigan State University in East Lansing, Michigan, USA
• [Presentation] Darwinian Evolution of Translation-coupled RNA Self-replication System. (2012)
  • Author(s): Ichihashi N
  • Organizer: The Thirteenth International Conference on the Synthesis and Simulation of Living Systems (Artificial Life XIII)
  • Place of Presentation: Michigan State University in East Lansing, Michigan, USA
• [Presentation] 人工自己複製システムのダーウィン進化 (2012)
  • Author(s): 市橋伯一
  • Organizer: 「細胞を創る」研究会5.0
  • Place of Presentation: 神奈川県 東京工業大学すずかけ台キャンパス
• [Presentation] 人工自己複製RNAの実験室内進化 (2012)
  • Author(s): 市橋伯一
  • Organizer: 日本進化学会第14回東京大会
  • Place of Presentation: 東京都 首都大学東京南大沢キャンパス
• [Presentation] 人工自己複製システムのダーウィン進化 (2012)
  • Author(s): 市橋伯一
  • Organizer: 第50回日本生物物理学会年会
  • Place of Presentation: 愛知県 名古屋大学 東山キャンパス
• [Presentation] Creating an artificial cell with different size revealed the effect of compartment volume on the intracompartmental multimeric protein synthesis (2012)
  • Author(s): Tomoaki Matsuura, et al
  • Organizer: The Thirteenth International Conference on the Synthesis and Simulation of Living Systems (Artificial Life XIII)
  • Place of Presentation: Michigan, USA
• [Presentation] Darwinian Evolution of Translation-coupled RNA Self-replication System. (2012)
  • Author(s): Norikazu Ichihashi, et al
  • Organizer: The Thirteenth International Conference on the Synthesis and Simulation of Living Systems (Artificial Life XIII)
  • Place of Presentation: Michigan, USA
• [Presentation] RNA自己複製反応の反応場体積依存性 (2011)
  • Author(s): 番所洋輔, 他
  • Organizer: 第34回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜(神奈川県)
  • Year and Date: 2011-12-14
• [Book] 進化分子工学 高速分子進化によるタンパク質・核酸の開発 (2013)
  • Author(s): 角南武志, 市橋伯一, 四方哲也
  • Total Pages: 466
  • Publisher: NTS
• [Book] Constructive approaches for the origin of life. A captor in"Genesis - in the Beginning : Precursors of Life, Chemical Models and Early Biological Evolution." (2012)
  • Author(s): Ichihashi, N., Matsuura, T., Kita, H., Sunami, T., Suzuki, H., Yomo, T(J. Seckbach Ed)
  • Publisher: Springer
• [Book] Genesis - in the Beginning: Precursors of Life, Chemical Models and Early Biological Evolution. (分担) (2012)
  • Author(s): Norikazu Ichihashi, et al
  • Total Pages: 973
  • Publisher: Springer
• [Remarks]
  • URL: http://www-symbio.ist.osaka-u.ac.jp/