Quantitative Bioimaging

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Quantitative Bioimaging

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Cytoskeleton is a key component of cell dynamics including cell division, growth, and differentiation. We are working on development of bioimage analysis framework to quantitatively evaluate multi-dimensional cytoskeletal organizations based on tight collaboration among experts in cell biology and bioimage informatics.

Unit members

Unit coordinator

Takumi HIGAKI Website

Professor
Faculty of Advanced Science and Technology (FAST), Kumamoto University

Japan
Fei DU

Postdoctoral Fellow, Chinese Academy of Sciences

China
Masaki SHIMONO

Research Associate, Michigan State University

USA
Kae AKITA Website

Lecturer
Nihon University

Japan

Achievements

Publications

Sakai Y, Higaki T, Ishizaki K, Nishihama R, Kohchi T, Hasezawa S (2022) Migration of prospindle before the first asymmetric division in germinating spore of Marchantia polymorpha. Plant Biotech 39: 5-12. (Published: 25 Mar 2022)
Okubo-Kurihara E, Ali A, Hiramoto M, Kurihara Y, Abouleila Y, Abdelazem EM, Kawai T, Makita Y, Kawashima M, Esaki T, Shimada H, Mori T, Hirai MY, Higaki T, Hasezawa S, Shimizu Y, Masujima T, Matsui M (2022) Tracking metabolites at single-cell resolution reveals metabolic dynamics during plant mitosis. Plant Physiol in press. (Published: 18 Mar 2022)
Suzuki R, Yamada M, Higaki T, Aida M, Kubo M, Tsai AY, Sawa S (2021) PUCHI regulates giant cell morphology during root-knot nematode infection in Arabidopsis thaliana. Front Plant Sci 12: 755610. (Published: 06 Oct 2021)
Kikukawa K, Sato R, Iwamoto M, Higaki T, "Wide-range segmentation of cotyledon epidermal cells for morphometrical analysis and mechanical simulation," Cytologia, 86: 189-194. 2021. (Published: 25 Sep 2021)
Kikukawa K, Yoshimura K, Watanabe A, Higaki T (2021) Metal-nano-ink coating for monitoring and quantification of cotyledon epidermal cell morphogenesis. Front Plant Sci 12: 745980. (Published: 21 Sep 2021)
Kamon E, Noda C, Higaki T, Demura T, Ohtani M (2021) Calcium signaling contributes to xylem vessel cell differentiation via post-transcriptional regulation of VND7 downstream events. Plant Biotech 38: 331-337 (Published: 18 Sep 2021)
Fujihara R, Uchida N, Tameshige T, Kawamoto N, Hotokezaka Y, Higaki T, Simon R, Torii KU, Tasaka M, Aida M (2021) The boundary-expressed EPIDERMAL PATTERNING FACTOR-LIKE2 gene encoding a signaling peptide promotes cotyledon growth during Arabidopsis thaliana embryogenesis. Plant Biotech 38: 317-322. (Published: 18 Sep 2021)
Sato F, Iba K, Higaki T (2021) Involvement of the membrane trafficking factor PATROL1 in the salinity stress tolerance of Arabidopsis thaliana. Cytologia 86: 119-126. (Published: 25 June 2021)
Higaki T, Sato F, Iba K (2021) Environmental responses of the membrane trafficking factor PATROL1 in the Arabidopsis stomatal complex. Cytologia 86: 101-102. (Published: 25 June 2021)
Kimura T, Haga K, Nomura Y, Higaki T, Nakagami H, Sakai T (2021) Phosphorylation of NONPHOTOTROPIC HYPOCOTYL3 affects photosensory adaptation during the phototropic response. Plant Physiol 187: 981?995. (Published: 17 June 2021)
Matsumoto H, Kimata Y, Higaki T, Higashiyama T, Ueda M (2021) Dynamic rearrangement and directional migration of tubular vacuoles are required for the asymmetric division of the Arabidopsis zygote. Plant Cell Physiol 62: 1280–1289. (Published: 02 Jun 2021)
Kunita I, Morita MT, Toda M, Higaki T (2021) A three-dimensional scanning system for digital archiving and quantitative evaluation of Arabidopsis plant architectures. Plant Cell Physiol 62: 1975-1982. (Published: 22 May 2021)
Takumi Higaki, Kae Akita, Kaoru Katoh, "Coefficient of variation as an image-intensity metric for cytoskeleton bundling.," Sci Rep 10: 22187. https://www.nature.com/articles/s41598-020-79136-
Yi-Ju Lu, Pai Li, Masaki Shimono, Alex Corrion, Takumi Higaki, Sheng Yang He, Brad Day, "Arabidopsis calcium-dependent protein kinase 3 regulates actin cytoskeleton organization and immunity," Nature Communications, 11, 6234, 2020. https://www.nature.com/articles/s41467-020-20007-4
Akita K, Takagi T, Kobayashi K, Kuchitsu K, Kuroiwa T, Nagata N (2020) Ultrastructural characterization of microlipophagy induced by the interaction of vacuoles and lipid bodies around generative and sperm cells in Arabidopsis pollen. Protoplasma in press. https://link.springer.com/article/10.1007/s00709-020-01557-2
Higaki T, Mizuno H (2020) Four-dimensional imaging with virtual reality to quantitatively explore jigsaw puzzle-like morphogenesis of Arabidopsis cotyledon pavement cells. Plant Biotech in press. http://doi.org/10.5511/plantbiotechnology.20.0605a
Yoshimi Y, Hara K, Yoshimura M, Tanaka N, Higaki T, Tsumuraya Y, Kotake T (2020) Expression of a fungal exo-β-1,3-galactanase in Arabidopsis reveals a role of type II arabinogalactans in the regulation of cell shape. J Exp Bot 71: 5414-5424. https://doi.org/10.1093/jxb/eraa236
Higaki T, Akita K, Hasezawa S (2020) Elevated CO2 promotes satellite stomata production in young cotyledons of Arabidopsis thaliana. Genes Cells in press. https://doi.org/10.1111/gtc.12773
Maeda K, Sasabe M, Hanamata S, Machida Y, Hasezawa S, Higaki T (2020) Actin filament disruption alters phragmoplast microtubule dynamics during the initial phase of plant cytokinesis. Plant Cell Physiol 61: 445-456. https://academic.oup.com/pcp/article/61/3/445/5716757
Wong JH, Kato T, Belteton S, Shimizu R, Kinoshita N, Higaki T, Sakumura Y, Szymanski DB, Hashimoto T (2019) Basic proline-rich protein-mediated microtubules are essential for lobe growth and flattened cell geometry. Plant Physiol 181: 1535-1551. https://doi.org/10.1104/pp.19.00811
Akita K, Higaki T (2019) An induction system for clustered stomata by sugar solution immersion treatment in Arabidopsis thaliana seedlings. J Vis Exp 144: e58951. https://www.jove.com/video/58951/
Tanaka M, Fujii Y, Hirano K, Higaki T, Nagasaki A, Ishikawa R, Okajima T, Katoh K　(2019) Fascin in lamellipodia contributes to cell elasticity by controlling the orientation of filamentous actin. Genes Cells 24: 202–213. https://doi.org/10.1111/gtc.12671
Kimata Y, Kato T, Higaki T, Kurihara D, Yamada T, Segami S, Morita MT, Maeshima M, Hasezawa S, Higashiyama T, Tasaka M, Ueda M (2019) Polar vacuolar distribution is essential for accurate asymmetric division of Arabidopsis zygotes. Proc Natl Acad Sci U S A 116: 2338-2343. https://doi.org/10.1073/pnas.1814160116
Hirano T, Konno H, Takeda S, Dolan L, Kato M, Aoyama T, Higaki T, Takigawa-Imamura H, Sato MH (2018) PtdIns(3,5)P2 mediates root hair shank hardening in Arabidopsis. Nat Plants 4: 888–897. https://www.nature.com/articles/s41477-018-0277-8
Takatsuka H, Higaki T, Umeda M (2018) Actin reorganization triggers rapid cell elongation in Arabidopsis roots. Plant Physiol 178: 1130-1141. http://www.plantphysiol.org/content/early/2018/09/05/pp.18.00557

Grants

Takumi Higaki (Lead Joint Researcher), CREST (Japan Science and Technology Agency), Development of technology platforms for quantitative analysis of spatiotemporal multicellular interaction, "Development of novel research strategy that integrates low-dimensionalized bioinformation with multilevel modeling," October 2021-March 2027.
Takumi Higaki, Grant-in-Aid for Scientific Research (B) (The Japan Society for the Promotion of Science), "Multi-dimensional bioimage analyses with machine learning to reveal the dynamics of membrane vesicles and microtubules in stomatal guard cells," April 2020-March 2023.
Takumi Higaki, Grant-in-Aid for Scientific Research on Innovative Areas (The Japan Society for the Promotion of Science), Elucidation of the strategies of mechanical optimization in plants toward the establishment of the bases for sustainable structure system, "Imaging analysis on cell geometry during mechanical optimization in leaves," June 2018-March 2023.
Takumi Higaki, Grant-in-Aid for Scientific Research on Innovative Areas (The Japan Society for the Promotion of Science), Platforms for Advanced Technologies and Research Resources "Advanced Bioimaging Support," "Consultation and technical support for bioimage analysis," April 2018-March 2022.

Activities

Presentations

2020-09-20	Oral presentations at the 84th Annual Meeting of the Botanical Society of Japan
2019-12-04	Oral presentation at the 42nd Annual Meeting of the Molecular Biology Society of Japan
2019-09-16	Oral presentation at the international symposium "Mechanisms of plant perception - from the endogenous to the exogenous" (Pully, Switzerland).
2019-09-15	Oral presentation at the 83th annual meeting of the Botanical Society of Japan
2019-03-13	Oral presentation at the 60th annual meeting of the Japan Society of Plant Physiologists
2018-12-15	Oral presentation at TUS Imaging Frontier Center Symposium
2018-12-06	Oral presentation at RIKEN CSRS
2018-10-22	Oral presentation at the 1st KU-KAIST Joint Symposium

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