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RIKEN Center for Sustainable Resource Science Chemical Genomics Research Group

Group Director: Minoru Yoshida (D.Agr.)

Research Summary

Minoru  Yoshida(D.Agr.)

Identification of novel small molecular ligands is essential to understand diverse biological phenomena and to control the biological systems by chemical methods. This project focuses on the development of useful molecular ligands that are expected to contribute to an advance in environmental and resource sciences by employing chemical libraries that consist of microbial metabolites and/or synthetic compounds. In particular, we search into novel active compounds by constructing a variety of phenotypic screening systems using genetically modified animal, plant and yeast cells, and in vitro screening systems using various target proteins that include enzymes for metabolism and epigenetics. In addition, we construct new platforms for developing high throughput screening systems. Our goal is to identify and provide unique molecular ligands that are useful for chemical biology research aiming at exploiting new area of environmental and resource sciences.

Main Research Fields

  • Biology

Related Research Fields

  • Chemistry

Keywords

  • Chemical Biology
  • Epigenetics
  • Mode of Action
  • Transcriptional Regulation
  • Chemical Screening for Drug Discovery

Selected Publications

  • 1. Noritsugu, K., Suzuki, T., Dodo, K., Ohgane, K., Ichikawa, Y., Koike, K., Morita, S., Umehara, T., Ogawa, K., Sodeoka, M., Dohmae, N., Yoshida, M., Ito, A.:
    "Lysine long-chain fatty acylation regulates the TEAD transcription factor.”
    Cell Rep. 42(4), 112388 (2023)
  • 2. Takase, S., Hiroyama, T., Shirai, F., Maemoto, Y., Nakata, A., Arata, M., Matsuoka, S., Sonoda, T., Niwa, H., Sato, S., Umehara, T., Shirouzu, M., Nishigaya, Y., Sumiya, T., Hashimoto, N., Namie, R., Usui, M., Ohishi, T., Ohba, S., Kawada, M., Hayashi, Y., Harada, H., Yamaguchi, T., Shinkai, Y., Nakamura, Y., Yoshida, M., Ito, A.:
    "A specific G9a inhibitor unveils BGLT3 lncRNA as a universal mediator of chemically induced fetal globin gene expression.”
    Nat. Commun. 14, 23 (2023)
  • 3. Sasaki, K., Suzuki, M., Sonoda, T., Schneider-Poetsch, T., Ito, A., Takagi, M., Fujishiro, S., Sohtome, Y., Dodo, K., Umehara, T., Aburatani, H., Shin-ya, K., Nakao, Y., Sodeoka, M., Yoshida, M.:
    "Visualization of the dynamic interaction between nucleosomal histone H3K9 tri-methylation and HP1α chromodomain in living cells.”
    Cell Chem. Biol. 29(7), 1153-1161.e5. (2022)
  • 4. Chhipi-Shrestha, J.K., Schneider-Poetsch, T., Suzuki, T., Mito, M., Khan, K., Dohmae, N., Iwasaki, S., Yoshida, M.:
    "Splicing modulators elicit global translational repression by condensate-prone proteins translated from introns."
    Cell Chem. Biol. 29(2), 259-275 (2022)
  • 5. Yoshimoto, R., Chhipi-Shrestha, J.K., Schneider-Poetsch, T., Furuno, M., Burroughs, A.M., Noma, S., Suzuki, H., Hayashizaki, Y., Mayeda, A., Nakagawa, S., Kaida, D., Iwasaki, S., Yoshida, M.:
    "Spliceostatin A interaction with SF3B1 limits U1 snRNP availability and causes premature cleavage and polyadenylation."
    Cell Chem. Biol. 28(9), 1356-1365.e4. (2021)
  • 6. Kobayashi, H., Hatakeyama, H., Nishimura, H., Yokota, M., Suzuki, S., Tomabechi, Y., Shirouzu, M., Osada, H., Mimaki, M., Goto, Y., Yoshida, M.:
    "Chemical reversal of abnormalities in cells carrying mitochondrial DNA mutations."
    Nat. Chem. Biol. 17(3), 335-343 (2021)
  • 7. Han, P., Shichino, Y., Schneider-Poetsch, T., Mito, M., Hashimoto, S., Udagawa, T., Kohno, K., Yoshida, M., Mishima, Y., Inada, T., Iwasaki, S.:
    "Genome-wide survey of ribosome collision."
    Cell Rep. 31(5), 107610 (2020)
  • 8. Ling, F., Bradshaw, E., Yoshida, M.:
    "Prevention of mitochondrial genomic instability in yeast by the mitochondrial recombinase Mhr1."
    Sci. Rep. 9(1), 5433 (2019)
  • 9. Schneider-Poetsch, T., Yoshida, M.:
    "Along the central dogma-controlling gene expression with small molecules."
    Annu. Rev. Biochem. 87, 391-420 (2018)
  • 10. Piotrowski, J.S., Li, S.C., Deshpande, R., Simpkins, S.W., Nelson, J., Yashiroda, Y., Barber, J.M., Safizadeh, H., Wilson, E., Okada, H., Gebre, A.A., Kubo, K., Torres, N., Leblanc, M.B., Andrusiak, K., Okamoto, R., Yoshimura, M., van Leeuwen, J., Shirahige, K., Baryshnikova, A., Brown, G., Saito, T., Costanzo, M., Andrews, B., Ohya, Y., Osada, H., Yoshida, M., Myers, C.L., Boone, C.:
    "Functional annotation of chemical libraries across diverse biological processes."
    Nat. Chem. Biol. 13(9), 982-993 (2017)

Related Links

Lab Members

Principal investigator

Minoru Yoshida
Group Director

Core members

Ken Matsumoto
Senior Research Scientist
Yoko Yashiroda
Senior Research Scientist
Akihisa Matsuyama
Senior Research Scientist
Tilman Hans Jorg Schneider-Poetsch
Senior Research Scientist
Feng Ling
Senior Scientist
Kazuki Sasaki
Senior Scientist
Takashi Ito
Senior Scientist
Sari Nurmila
Postdoctoral Researcher
Rumi Kurokawa
Technical Staff I
Atsushi Hashimoto
Technical Staff II
Megumi Takase
Technical Staff II
Huanlin Li
Junior Research Associate

Contact Information

2-1 Hirosawa, Wako, Saitama 351-0198, Japan
Tel: +81-(0)48-467-9516
Fax: +81-(0)48-462-4676

Email: yoshidam [at] riken.jp

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