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Coauthors
Ikuko Hara-Nishimura Department of Botany, Graduate School of Science, Kyoto University, Japan
1 protocol

Shigeo Sugano Center for Collaboration among Agriculture, Industry and Commerce, Tokushima University, Japan
1 protocol

Takashi Kawase Department of System Science, Graduate School of Informatics, Kyoto University, Japan
1 protocol

Tomoo Shimada
  • Department of Botany, Graduate School of Science, Kyoto University, Japan
Contributions
  • 1 Author merit

Education

Ph.D. in Science, The Graduate University for Advanced Studies, 1995

Current position

Lecturer in Department of Botany, Graduate School of Science, Kyoto University, Japan

Publications

  1. Fuji, K., Shirakawa, M., Shimono, Y., Kunieda, T., Fukao, Y., Koumoto, Y., Takahashi, H., Hara-Nishimura, I. and Shimada, T. (2016). The Adaptor Complex AP-4 Regulates Vacuolar Protein Sorting at the trans-Golgi Network by Interacting with VACUOLAR SORTING RECEPTOR1. Plant Physiol 170(1): 211-219.
  2. Teh, O. K., Hatsugai, N., Tamura, K., Fuji, K., Tabata, R., Yamaguchi, K., Shingenobu, S., Yamada, M., Hasebe, M., Sawa, S., Shimada, T. and Hara-Nishimura, I. (2015). BEACH-domain proteins act together in a cascade to mediate vacuolar protein trafficking and disease resistance in Arabidopsis. Mol Plant 8(3): 389-398.
  3. Kawase, T., Sugano, S. S., Shimada, T. and Hara-Nishimura, I. (2015). A direction-selective local-thresholding method, DSLT, in combination with a dye-based method for automated three-dimensional segmentation of cells and airspaces in developing leaves. Plant J 81(2): 357-366.
  4. Shirakawa, M., Ueda, H., Shimada, T., Kohchi, T. and Hara-Nishimura, I. (2014). Myrosin cell development is regulated by endocytosis machinery and PIN1 polarity in leaf primordia of Arabidopsis thaliana. Plant Cell 26(11): 4448-4461.
  5. Shirakawa, M., Ueda, H., Nagano, A. J., Shimada, T., Kohchi, T. and Hara-Nishimura, I. (2014). FAMA is an essential component for the differentiation of two distinct cell types, myrosin cells and guard cells, in Arabidopsis. Plant Cell 26(10): 4039-4052.
  6. Ichino, T., Fuji, K., Ueda, H., Takahashi, H., Koumoto, Y., Takagi, J., Tamura, K., Sasaki, R., Aoki, K., Shimada, T. and Hara-Nishimura, I. (2014). GFS9/TT9 contributes to intracellular membrane trafficking and flavonoid accumulation in Arabidopsis thaliana. Plant J 80(3): 410-423.
  7. Sugano, S. S., Shirakawa, M., Takagi, J., Matsuda, Y., Shimada, T., Hara-Nishimura, I. and Kohchi, T. (2014). CRISPR/Cas9-mediated targeted mutagenesis in the liverwort Marchantia polymorpha L. Plant Cell Physiol 55(3): 475-481.
  8. Shirakawa, M., Ueda, H., Koumoto, Y., Fuji, K., Nishiyama, C., Kohchi, T., Hara-Nishimura, I. and Shimada, T. (2014). CONTINUOUS VASCULAR RING (COV1) is a trans-Golgi network-localized membrane protein required for Golgi morphology and vacuolar protein sorting. Plant Cell Physiol 55(4): 764-772.
  9. Takagi, J., Renna, L., Takahashi, H., Koumoto, Y., Tamura, K., Stefano, G., Fukao, Y., Kondo, M., Nishimura, M., Shimada, T., Brandizzi, F. and Hara-Nishimura, I. (2013). MAIGO5 functions in protein export from Golgi-associated endoplasmic reticulum exit sites in Arabidopsis. Plant Cell 25(11): 4658-4675.
  10. Li, L., Shimada, T., Takahashi, H., Koumoto, Y., Shirakawa, M., Takagi, J., Zhao, X., Tu, B., Jin, H., Shen, Z., Han, B., Jia, M., Kondo, M., Nishimura, M. and Hara-Nishimura, I. (2013). MAG2 and three MAG2-INTERACTING PROTEINs form an ER-localized complex to facilitate storage protein transport in Arabidopsis thaliana. Plant J 76(5): 781-791.
1 Protocol published
Differential and Simultaneous Visualization of Cells and Airspaces in Plant Leaves
Authors:  Takashi Kawase, Shigeo S. Sugano, Tomoo Shimada and Ikuko Hara-Nishimura, date: 06/05/2016, view: 1637, Q&A: 0
This protocol is to differentially and simultaneously visualize both cells and airspaces in intact leaves and to create 3D structures of cells and airspaces from confocal images using the software DSLT_Demo (https://github.com/nslab2000/DSLT ...