Synthetic Biology Platform Unit Research Achievements

List of Research Achievements

1. Cytosine base editing systems with minimized off-target effect and molecular size.
   Li A, Mitsunobu H, Yoshioka S, Suzuki T, Kondo A, Nishida K.
   Nat Commun. 2022 Aug 8;13(1):4531. doi: 10.1038/s41467-022-32157-8.
2. Deaminase-mediated multiplex genome editing in Escherichia coli
   Satomi Banno, Keiji Nishida, Takayuki Arazoe, Hitoshi Mitsunobu, Akihiko Kondo
   Nature Microbiology 3(4) 423-429 2018年4月1日
3. Targeted base editing in rice and tomato using a CRISPR-Cas9 cytidine deaminase fusion
   Zenpei Shimatani, Sachiko Kashojiya, Mariko Takayama, Rie Terada, Takayuki Arazoe, Hisaki Ishii, Hiroshi Teramura, Tsuyoshi Yamamoto, Hiroki Komatsu, Kenji Miura, Hiroshi Ezura, Keiji Nishida, Tohru Ariizumi, Akihiko Kondo
   NATURE BIOTECHNOLOGY 35(5) 441-+ 2017年5月
4. Targeted nucleotide editing using hybrid prokaryotic and vertebrate adaptive immune systems
   Keiji Nishida, Takayuki Arazoe, Nozomu Yachie, Satomi Banno, Mika Kakimoto, Mayura Tabata, Masao Mochizuki, Aya Miyabe, Michihiro Araki, Kiyotaka Y. Hara, Zenpei Shimatani, Akihiko Kondo
   SCIENCE 353(6305) aaf8729 2016年9
5. A novel method for transforming Geobacillus kaustophilus with a chromosomal segment of Bacillus subtilis transferred via pLS20-dependent conjugation
   Kotaro Mori, Kaho Fukui, Ryotaro Amatsu, Shu Ishikawa, Valeria Verrone, Anil Wipat, Wilfried J. J. Meijer, Ken-ichi Yoshida
   Microbial Cell Factories 21(1) 2022年12月
6. Assessment of Bacillus subtilis Plasmid pLS20 Conjugation in the Absence of Quorum Sensing Repression
   Kotaro Mori, Valeria Verrone, Ryotaro Amatsu, Kaho Fukui, Wilfried J. J. Meijer, Shu Ishikawa, Anil Wipat, Ken-ichi Yoshida
   Microorganisms
7. A bacterial cell factory converting glucose into scyllo-inositol, a therapeutic agent for Alzheimer's disease.
   Christophe Michon, Choong-Min Kang, Sophia Karpenko, Kosei Tanaka, Shu Ishikawa, Ken-Ichi Yoshida
   Communications biology 3(1) 93-93 2020年3月2日
8. Bradyrhizobium diazoefficiens USDA110 PhaR functions for pleiotropic regulation of cellular processes besides PHB accumulation
   Nishihata Shogo, Kondo Takahiko, Tanaka Kosei, Ishikawa Shu, Takenaka Shinji, Kang Choong-Min, Yoshida Ken-ichi
   BMC Microbiology 18 2018年10月
9. Rapid conjugative mobilization of a 100kb segment of Bacillus subtilis chromosomal DNA is mediated by a helper plasmid with no ability for self-transfer
   Megumi Miyano, Kosei Tanaka, Shu Ishikawa, Shinji Takenaka, Andrés Miguel-Arribas, Wilfried J.J. Meijer, Ken-ichi Yoshida
   Microbial Cell Factories 17(1) 2018年1月27日
10. Caffeic acid production from glucose using metabolically engineered Escherichia coli
    Kosuke Sakae, Daisuke Nonaka, Mayumi Kishida, Yuuki Hirata, Ryosuke Fujiwara, Akihiko Kondo, Shuhei Noda, Tsutomu Tanaka
    Enzyme and Microbial Technology 164 110193-110193 2023年3月
11. Metabolic engineering of Schizosaccharomyces pombe for itaconic acid production
    Naofumi Fujie, Miki Ito, Mayumi Kishida, Yuuki Hirata, Akihiko Kondo, Tsutomu Tanaka
    Journal of Biotechnology 358 111-117 2022年11月
12. Reprogramming Escherichia coli pyruvate-forming reaction towards chorismate derivatives production
    Shuhei Noda, Yutaro Mori, Ryosuke Fujiwara, Tomokazu Shirai, Tsutomu Tanaka, Akihiko Kondo
    Metabolic Engineering 67 1-10 2021年9月
13. Metabolic engineering of Escherichia coli for shikimate pathway derivative production from glucose–xylose co-substrate
    Ryosuke Fujiwara, Shuhei Noda, Tsutomu Tanaka, Akihiko Kondo
    Nature Communications 11 279 2020年1月
14. Muconic Acid Production Using Gene-Level Fusion Proteins in Escherichia coli.
    Fujiwara R, Noda S, Tanaka T, Kondo A
    ACS synthetic biology 2018年10月
15. Self-assembly of Aeropyrum pernix bacilliform virus 1 (APBV1) major capsid protein and its application as building blocks for nanomaterials.
    Sumikama Y, Takashima A, Mochizuki T, Sakuraba H, Ohshima T, Sugihara S, Suye SI, Satomura T.
    Extremophiles. 2022 Nov 13;26(3):34. doi: 10.1007/s00792-022-01284-x.
16. Quantitative Viral Community DNA Analysis Reveals the Dominance of Single-Stranded DNA Viruses in Offshore Upper Bathyal Sediment from Tohoku, Japan.
    Yoshida M, Mochizuki T, Urayama SI, Yoshida-Takashima Y, Nishi S, Hirai M, Nomaki H, Takaki Y, Nunoura T, Takai K.
17. Archaeal virus with exceptional virion architecture and the largest single-stranded DNA genome.
    Mochizuki T, Krupovic M, Pehau-Arnaudet G, Sako Y, Forterre P, Prangishvili D.
    Proc Natl Acad Sci U S A. 2012 Aug 14;109(33):13386-91. doi: 10.1073/pnas.1203668109. Epub 2012 Jul 23
18. Enhanced squalene production by modulation of pathways consuming squalene and its precursor.
    Masahiro Tominaga, Keita Miyazaki, Shoko Hataya, Yasumasa Mitsui, Shuji Kuroda, Akihiko Kondo, Jun Ishii
    Journal of bioscience and bioengineering 134(1) 1-6 2022年7月
19. Robust and flexible platform for directed evolution of yeast genetic switches
    Masahiro Tominaga, Kenta Nozaki, Daisuke Umeno, Jun Ishii, Akihiko Kondo
    NATURE COMMUNICATIONS 12(1) 2021年3月
20. Rapid and Liquid-Based Selection of Genetic Switches Using Nucleoside Kinase Fused with Aminoglycoside Phosphotransferase
    Masahiro Tominaga, Kohei Ike, Shigeko Kawai-Noma, Kyoichi Saito, Daisuke Umeno
    PLOS ONE 10(3) e0120243 2015年3月