Yosuke Toda

  • PhD (Agriculture)
  • tyosuke”at”aquaseerser.com

Current Position

Education

  • 2010-2013 PhD, Graduate School of Bio-agricultural Sciences, Nagoya University, Japan
  • 2008-2010 MS, Graduate School of Bio-agricultural Sciences, Nagoya University, Japan
  • 2004-2008 BA, Department of Agriculture, Nagoya University, Japan

Professional Positions

  • 2020-Present CEO, Phytometrics Inc.
  • 2019-Present Proj. Assistant Professor, ITbM of Nagoya University
  • 2018-2019 Executive Officer, Agri-Heir Co., Ltd.
  • 2017-2021 JST PRESTO (さきがけ) Project Researcher, JST
  • 2017-2019 Visiting Researcher, ITbM of Nagoya University
  • 2013-2017 Post-Doc., Group of Plant Physiology (Prof. Kinoshita) of Nagoya University

Grants

  • 2021-2024 Grant-in-Aid for Transformative Research Areas (B), co-investigator
  • 2017-2021 JST PRESTO
  • 2017-2018 ITbM Research Award

Publications

  1. Toda, Y., Tameshige, T., Tomiyama, M., Kinoshita, T., & Shimizu, K. K. (2021). An Affordable Image-Analysis Platform to Accelerate Stomatal Phenotyping During Microscopic Observation. Frontiers in Plant Science, 12, 715309. https://doi.org/10.3389/fpls.2021.715309
  2. Toda, Y., Okura, F., Ito, J., Okada, S., Kinoshita, T., Tsuji, H., & Saisho, D. (2020). Training instance segmentation neural network with synthetic datasets for crop seed phenotyping. Communications Biology, 3(1), 173. https://doi.org/10.1038/s42003-020-0905-5
  3. Okura, F., Mizutani, M., Noshita, K., & Toda, Y. (2020). Past and Future of Plant Science with Artificial Intelligence. BSJ-Review, 11(C), 185–206. https://doi.org/10.24480/bsj-review.11c2.00191
  4. Okura, F., Noshita, K., Kinoshita, T., & Toda, Y. (2019). Perspectives of Plant Phenotypic Analysis Utilizing Deep Learning. BSJ-Review, 10(B), 99–107. https://doi.org/10.24480/bsj-review.10b7.00160
  5. Toda, Y., Kudo, T., Kinoshita, T., & Nakamichi, N. (2019). Evolutionary Insight into the Clock-Associated PRR5 Transcriptional Network of Flowering Plants. Scientific Reports, 9(1), 2983. https://doi.org/10.1038/s41598-019-39720-2
  6. Toda, Y., & Okura, F. (2019). How Convolutional Neural Networks Diagnose Plant Disease. Plant Phenomics, 2019, 9237136. https://doi.org/10.34133/2019/9237136
  7. Toda, Y., Toh, S., Bourdais, G., Robatzek, S., & Maclean, D. (2018). DeepStomata: Facial Recognition Technology for Automated Stomatal Aperture Measurement. bioRxiv. https://www.biorxiv.org/content/10.1101/365098v1.abstract
  8. Toda, Y., Wang, Y., Takahashi, A., Kawai, Y., Tada, Y., Yamaji, N., Feng Ma, J., Ashikari, M., & Kinoshita, T. (2016). Oryza sativa H+-ATPase (OSA) is Involved in the Regulation of Dumbbell-Shaped Guard Cells of Rice. Plant & Cell Physiology, 57(6), 1220–1230. https://doi.org/10.1093/pcp/pcw070
  9. Toda, Y., Yoshida, M., Hattori, T., & Takeda, S. (2013). RICE SALT SENSITIVE3 binding to bHLH and JAZ factors mediates control of cell wall plasticity in the root apex. Plant Signaling & Behavior, 8(11), e26256. https://doi.org/10.4161/psb.26256
  10. Toda, Y., Tanaka, M., Ogawa, D., Kurata, K., Kurotani, K.-I., Habu, Y., Ando, T., Sugimoto, K., Mitsuda, N., Katoh, E., Abe, K., Miyao, A., Hirochika, H., Hattori, T., & Takeda, S. (2013). RICE SALT SENSITIVE3 forms a ternary complex with JAZ and class-C bHLH factors and regulates jasmonate-induced gene expression and root cell elongation. The Plant Cell, 25(5), 1709–1725. https://doi.org/10.1105/tpc.113.112052

Collaborative Publications

  1. Zhang, M., Wang, Y., Chen, X., Xu, F., Ding, M., Ye, W., Kawai, Y., Toda, Y., Hayashi, Y., Suzuki, T., Zeng, H., Xiao, L., Xiao, X., Xu, J., Guo, S., Yan, F., Shen, Q., Xu, G., Kinoshita, T., & Zhu, Y. (2021). Plasma membrane H+-ATPase overexpression increases rice yield via simultaneous enhancement of nutrient uptake and photosynthesis. Nature Communications, 12(1), 735. https://doi.org/10.1038/s41467-021-20964-4
  2. Yoshinari, A., Toda, Y., & Takano, J. (2021). GNOM-dependent endocytosis maintains polar localisation of the borate exporter BOR1 in Arabidopsis. Biology of the Cell, 113(5), 264–269. https://doi.org/10.1111/boc.202000106
  3. Busch, F. A., Tominaga, J., Muroya, M., Shirakami, N., Takahashi, S., Yamori, W., Kitaoka, T., Milward, S. E., Nishimura, K., Matsunami, E., Toda, Y., Higuchi, C., Muranaka, A., Takami, T., Watanabe, S., Kinoshita, T., Sakamoto, W., Sakamoto, A., & Shimada, H. (2020). Overexpression of BUNDLE SHEATH DEFECTIVE 2 improves the efficiency of photosynthesis and growth in Arabidopsis. The Plant Journal: For Cell and Molecular Biology, 102(1), 129–137. https://doi.org/10.1111/tpj.14617
  4. Toh S, Inoue S, Toda Y, Yuki T, Suzuki K, Hamamoto S, Fukatsu K, Aoki S, Uchida, M Asai E, et al. Identification and Characterization of Compounds that Affect Stomatal Movements. Plant Cell Physiol. 2018: 59, 1568–1580.
  5. Kurokawa Y, Nagai K, Huan P.D, Shimazaki K, Qu H, Mori Y, Toda Y, Kuroha T, Hayashi N, Aiga S, et al. Rice leaf hydrophobicity and gas films are conferred by a wax synthesis gene (LGF1) and contribute to flood tolerance. New Phytol. 2018: 1558–1569.
  6. Win K, Yamagata Y, Doi K, Uyama K, Nagai Y, Toda Y, Kani T. Ashikari M, Yasui H, and Yoshimura, A. A single base change explains the independent origin of and selection for the non shattering gene in African rice domestication. New Phytol. 2016:1925-1935.
  7. Kurotani K, Yamanaka K, Toda Y, Ogawa D, Tanaka M, Kozawa H, Nakamura H, Hakata M, Ichikawa H, Hattori T, et al. Stress Tolerance Profiling of a Collection of Extant Salt-Tolerant Rice Varieties and Transgenic Plants Overexpressing Abiotic Stress Tolerance Genes. Plant Cell Physiol. 2015:1867–1876.
  8. Ogawa D, Abe K, Miyao A, Kojima M, Sakakibara H, Mizutani M, Morita H, Toda Y, Hobo T, Sato Y, Hattori T, Hirochika H, and Takeda S. RSS1 regulates the cell cycle and maintains meristematic activity under stress conditions in rice. Nat Commun. 2011: 2:278.
  9. Hanin M, Brini F, Ebel C, Toda Y, Takeda S, and Masmoudi K. Plant dehydrins and stress tolerance: versatile proteins for complex mechanisms. Plant Signal Behav. 2011: 6(10):1503-1509.

References

Dr. Toshinori Kinoshita Professor, Nagoya University Dr. Motoyuki Ashikari Professor, Nagoya University Dr. Dan Macleen Head of Bioinformatics Division, The Sainsbury Laboratory