Work
1. Lecture note | 講義資料
Advanced Evolutional Systems (Population Genetics) 進化システム特論(集団遺伝学) @ Osaka Univ.
Integrated Biological and Information Engineering 先端生物情報融合論 @ Osaka Univ.
Introduction to Bioinformatic Engineering バイオ情報工学入門 @ Osaka Univ.
2. Technical | 原著論文
Saburo Tsuru, Naoki Hatanaka, Chikara Furusawa. (2024) Promoter constrains evolution of expression levels of essential genes in Escherichia coli. bioRxiv (preprint).
Saburo Tsuru, Chikara Furusawa. (2024) Genetic properties underlying transcriptional variability across different perturbations. bioRxiv (preprint).
Yuki Kanai, Saburo Tsuru, Chikara Furusawa. (2023) Insertion sequences: Simple mobile elements with rich ecological and evolutionary structures. Current Opinion in Systems Biology, 36, 100481, 1-7.
Yuki Azuma, Saburo Tsuru, Masumi Habuchi, Risa Takami, Sotaro Takano, Kayo Yamamoto, Kazufumi Hosoda. (2023) Synthetic symbiosis between a cyanobacterium and a ciliate toward novel chloroplast-like endosymbiosis. Scientific Reports, 13, 6104, 1-9.
Sotaro Takano, Hiromi Takahashi, Yoshie Yama, Ryo Miyazaki, Chikara Furusawa, Saburo Tsuru. (2023) Inference of transcriptome signatures of Escherichia coli in long-term stationary phase. Scientific Reports, 13, 5647, 1-13.
Atsushi Shibai, Hazuki Kotani, Natsue Sakata, Chikara Furusawa, Saburo Tsuru. (2022) Purifying selection enduringly acts on the sequence evolution of highly expressed proteins in Escherichia coli. G3, 12(11), jkac235.
Yuki Kanai, Saburo Tsuru, Chikara Furusawa. (2022) Experimental demonstration of operon formation catalyzed by insertion sequence. Nucleic Acids Research, 50(3), 1673-1686.
Takahiro Komori, Atsushi Shibai, Hiromi Saito, Yuya Akeno, Arnaud Germond, Takaaki Horinouchi, Chikara Furusawa, Saburo Tsuru.(2018) Enhancement of K-strategy evolution in histidine utilization using a container with compartments. Genes to Cells, 23 (10), 893-903.
Atsushi Shibai, Saburo Tsuru, Tetsuya Yomo. (2018) Development of an automated UV irradiation device for microbial cell culture. SLAS Technology, 24 (3), 342-348
Atsushi Shibai, Yusuke Takahashi, Yuka Ishizawa, Daisuke Motooka, Shota Nakamura, Bei-Wen Ying, Saburo Tsuru.(2017) Mutation accumulation under UV radiation in Escherichia coli. Scientific Reports, 7, 14531, 1-12.
Sotaro Takano, Bogna J. Pawlowska, Ivana Gudelj, Tetsuya Yomo, Saburo Tsuru.(2017) Density-Dependent Recycling Promotes the Long-Term Survival of Bacterial Populations during Periods of Starvation. mBio, 8:e02336-16.
Rebecca Baumstark, Sonja Hänzelmann, Saburo Tsuru, Yolanda Schaerli, Mirko Francesconi, Francesco M. Mancuso, Robert Castelo, Mark Isalan.(2015) The propagation of perturbations in rewired bacterial gene networks. Nature Communications,6,10105.
Saburo Tsuru, Yuka Ishizawa, Atsushi Shibai, Yusuke Takahashi, Daisuke Motooka, Shota Nakamura, Tetsuya Yomo.(2015) Genomic confirmation of nutrient-dependent mutability of mutators in Escherichia coli. Genes to Cells,20(12),972-981.
Bei-Wen Ying, Tomoya Honda, Saburo Tsuru, Shigeto Seno, Hideo Matsuda, Yasuaki Kazuta, Tetsuya Yomo.(2015) Evolutionary Consequence of a Trade-Off between Growth and Maintenance along with Ribosomal Damages. PLoS ONE,10(8),e0135639.
Toshihiko Kishimoto, Bei-Wen Ying, Saburo Tsuru, Leo Iijima,Shingo Suzuki, Tomomi Hashimoto, Ayana Oyake, Hisaka Kobayashi, Yuki Someya, Dai Narisawa, Tetsuya Yomo.(2015) Molecular Clock of Neutral Mutations in a Fitness-Increasing Evolutionary Process. PLoS Genetics,11(7),e1005392.
Yoshie Murakami,Yuki Matsumoto, Saburo Tsuru, Bei-Wen Ying,Tetsuya Yomo.(2014) Global coordination in adaptation to gene rewiring. Nucleic Acids Research,42(2),1304-1316.
Mari Yoshida, Saburo Tsuru, Naoko Hirata, Shigeto Seno, Hideo Matsuda, Bei-Wen Ying, Tetsuya Yomo.(2014) Directed evolution of cell size in Escherichia coli. BMC Evolutionary Biology,14(257).
Yuka Ishizawa, Bei-Wen Ying, Saburo Tsuru, Tetsuya Yomo.(2014) Nutrient-dependent growth defects and mutability of mutators in Escherichia coli. Genes to Cells.,20(1),68-76.
Kazuya Nishimura, Saburo Tsuru, Hiroaki Suzuki, Tetsuya Yomo.(2014) Stochasticity in gene expression in a cell-sized compartment. ACS Synth. Biol.,4(5),566-576.
Yuya Akeno, Bei-Wen Ying, Saburo Tsuru, Tetsuya Yomo.(2014) A reduced genome decreases the host carrying capacity for foreign DNA. Microbial Cell Factories,13(49),1-9.
Bei-Wen Ying, Saburo Tsuru, Shigeto Seno, Hideo Matsuda, Tetsuya Yomo.(2014) Gene expression scaled by distance to the genome replication site. Mol. BioSyst.,10,(3),375-379.
Yuki Matsumoto, Yoshie Murakami, Saburo Tsuru, Bei-Wen Ying, Tetsuya Yomo.(2013) Growth rate-coordinated transcriptome reorganization in bacteria. BMC Genomics,14(808),1-10.
Yuki Matsumoto, Yoichiro Ito, Saburo Tsuru, Bei-Wen Ying, Tetsuya Yomo.(2011) Bacterial Cells Carrying Synthetic Dual-Function Operon Survived Starvation. Journal of Biomedicine and Biotechnology,1-10.
Yoshihiro Shimizu, Saburo Tsuru, Yoichiro Ito, Bei-Wen Ying, Tetsuya Yomo.(2011) Stochastic Switching Induced Adaptation in a Starved Escherichia coli Population. PLoS ONE,6(9),e23953.
Saburo Tsuru, Nao Yasuda, Yoshie Murakami, Junya Ushioda, Akiko Kashiwagi, Shingo Suzuki, Kotaro Mori, Bei-Wen Ying, Tetsuya Yomo.(2011) Adaption by stochastic switching of a monostable genetic circuit in Escherichia coli. Molecular Systems Biology,7(493),1-10.
Saburo Tsuru, Junya Ichinose, Akiko Kashiwagi, Bei-Wen Ying, Kunihiko Kaneko, Tetsuya Yomo. (2009) Noisy cell growth rate leads to fluctuating protein concentration in bacteria. Physical Biology, 6(3),036015.
Akiko Kashiwagi, Takahiro Sakurai, Saburo Tsuru, Bei-Wen Ying, Kotaro Mori, Tetsuya Yomo. (2009) Construction of Escherichia coli gene expression level perturbation collection. Metabolic Engineering,11(1),56-63.
3. General Public | 解説
Bei-Wen Ying，津留三良，四方哲也（2011）細胞の個性による運命の決定. 細胞工学,30(10): 1078-1083.
津留三良，Bei-Wen Ying，四方哲也（2010）遺伝子発現ゆらぎの解析と応用. 実験医学, 28 (1): 7-11.