Publication

2022

Original papers

• "Conversion of mevalonate to isoprenol using light energy in Escherichia coli without consuming sugars for ATP supply"
  Mikoto Sano, Ryo Tanaka, Kentaro Kamata, Yoko Hirono-Hara, Jun Ishii, Fumio Matsuda, Kiyotaka Y Hara, Hiroshi Shimizu, Yoshihiro Toya
  ACS Synthetic Biology 11, 12, 3966–3972 (2022).

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• "Evolutionary approach for improved proton pumping activity of heterologous rhodopsin expressed in Escherichia coli"
  Kensuke Otsuka, Taisuke Seike, Yoshihiro Toya, Jun Ishii, Yoko Hirono-Hara, Kiyotaka Y Hara, Fumio Matsuda
  Journal of Bioscience and Bioengineering 134, 6, 484-490 (2022).

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• "Logistic regression-guided identification of cofactor specificity-contributing residues in enzyme with sequence datasets partitioned by catalytic properties"
  Sou Sugiki, Teppei Niide, Yoshihiro Toya, Hiroshi Shimizu
  ACS Synthetic Biology 11, 12, 3973–3985 (2022).

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• "13C Metabolic flux analysis clarifies distinct metabolic phenotypes of cancer cell spheroid mimicking tumor hypoxia"
  Shingo Noguchi, Kenichi Wakita, Fumio Matsuda, Hiroshi Shimizu
  Metabolic Engineering 73, 192-200 (2022).

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• "Metabolic pathway design for growth-associated phenylalanine production using synthetically designed mutualism"
  Ryutaro Kawai, Yoshihiro Toya, Hiroshi Shimizu
  Bioprocess and Biosystems Engineering 45, 1539-1546 (2022).

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• "Constitutive expression of the global regulator AbrB restores the growth defect of a genome-reduced Bacillus subtilis strain and improves its metabolite production."
  Junya Yamamoto, Onuma Chumsakul, Yoshihiro Toya, Takuya Morimoto, Shenghao Liu, Kenta Masuda, Yasushi Kageyama, Takashi Hirasawa, Fumio Matsuda, Naotake Ogasawara, Hiroshi Shimizu, Ken-ichi Yoshida, Taku Oshima, Shu Ishikawa
  DNA Research 29, 3, 44574 (2022).

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• "Metabolic pathway engineering for the non-growth-associated succinate production in Escherichia coli based on flux solution space"
  Yoshihiro Toya, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 134, 1, 29-33 (2022).

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• "Optogenetic reprogramming of carbon metabolism using light-powering microbial proton pump systems"
  Yoshihiro Toya, Yoko Hirono-Hara, Hidenobu Hirayama, Kentaro Kamata, Ryo Tanaka, Mikoto Sano, Sayaka Kitamura, Kensuke Otsuka, Rei Abe-Yoshizumi, Satoshi P Tsunoda, Hiroshi Kikukawa, Hideki Kandori, Hiroshi Shimizu, Fumio Matsuda, Jun Ishii, Kiyotaka Y Hara
  Metabolic Engineering 72, 227-236 (2022).

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• "Improvement of 2, 3-butanediol production by dCas9 gene expression system in Saccharomyces cerevisiae"
  Keisuke Morita, Taisuke Seike, Jun Ishii, Fumio Matsuda, Hiroshi Shimizu
  Journal of Bioscience and Bioengineering 133, 3, 208-212 (2022).

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• "Acceleration of target production in co-culture by enhancing intermediate consumption through adaptive laboratory evolution"
  Ryutaro Kawai, Yoshihiro Toya, Kenta Miyoshi, Manami Murakami, Teppei Niide, Takaaki Horinouchi, Tomoya Maeda, Atsushi Shibai, Chikara Furusawa, Hiroshi Shimizu
  Biotechnology and Bioengineering 119, 3, 936-945 (2022).

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Review papers

• "多様な光に適応する藍藻のシステムバイオロジー"
  清水 浩, 戸谷 吉博
  生物物理 62, 4, 104-109 (2022).
• "バイオによるものづくりに貢献する機械学習・深層学習技術"
  徳山 健斗, 清水 浩
  化学工学会誌 86, 4, 161-164 (2022).
• "データサイエンス駆動型リジン発酵プロセス予測モデリング"
  徳山 健斗, 下平 祥貴, 寺脇 貴弘, 楠瀬 泰弘, 中井 裕章, 辻 雄一郎, 戸谷 吉博, 松田 史生, 清水 浩
  生物工学会誌 100, 2, 80 (2022).
• "発酵生産プロセスにおけるDX：データ駆動型のリジン発酵自律制御システムの開発"
  徳山 健斗, 清水 浩
  バイオサイエンスとインダストリー 80, 1, 26-30 (2022).

Others

• "バイオ系のキャリアデザイン（就職支援OG・OBインタビュー編） Interview 1"
  戸谷 吉博
  生物工学会誌 100, 9, 516-517 (2022).

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