Tomotsugu Koyama
Current Organizations / Institutes
The organizations/institutes from the scholar's latest article
Previous Organizations / Institutes
The organizations / institutes from the scholar's other articles in the past ten years
Research Subjects
Tomotsugu Koyama has a total of 114 co-authors. Here are the top co-authors by number of shared publications:
- Jun Murata
Suntory Foundation for Life Sciences
9 shared publications - Honoo Satake
Bioorganic Research Institute, Suntory Foundation for Life Sciences, Kyoto, 619-0284, Japan
8 shared publications - Eiichiro Ono
Suntory Global Innovation Center (SIC) Ltd
5 shared publications - Erika Matsumoto
Suntory Foundation for Life Sciences
4 shared publications Eiichiro Ono
Research Institute, Suntory Global Innovation Center Ltd (SIC), 8-1-1 Seikadai, Seika, Soraku, Kyoto, 619-0284, Japan
3 shared publications- Fumihiko Sato
Graduate School of Biostudies, Kyoto University
3 shared publications
Latest Publications
- Open Access
- 5 October 2025
- Published by Wiley in New Phytologist
- Vol. 248 (6) , 2981-2995
TCP3 ‐mediated regulation of cell expansion in Arabidopsis thaliana
Summary: Cell expansion is crucial for organ morphogenesis in multicellular organisms. Apoplast acidification triggers plant cell expansion. Plant hormones and transcription factors such as TEOSINTE BRANCHED, CYCLOIDEA, and PROLIFERATING CELL NUCLEAR ANTIGEN BINDING FACTORs (TCPs) control cell expansion. However, details regarding the regulatory mechanism of cell expansion for organ morphogenesis remain unclear. In this study, we used molecular, biochemical, cellular, genetic, atomic force microscopy, and tensile testing analyses and showed that miR319‐targeted TCPs integrated cell expansion with organ morphogenesis in Arabidopsis thaliana . We found that TCPs directly induce the expression of genes encoding cell wall–loosening proteins and SMALL AUXIN UP RNAs (SAURs), activators of plasma membrane–localized H + ‐ATPases. TCP‐mediated activation of plasma membrane–localized H + ‐ATPases stimulates apoplast acidification, reduces cell wall stiffness, promotes cell expansion, and thus exaggerates elongation of the hypocotyl. Ectopic expression of a SAUR gene in sextuple tcp mutant plants substantially recovered the hypocotyl morphology of the tcp mutant, providing genetic evidence of TCP ‐mediated SAUR regulation. Collectively, our data show that TCPs regulate apoplast acidification for cell expansion.
- 5 October 2025
- Published by Wiley in New Phytologist
- Vol. 248 (6) , 2981-2995
Open AccessTCP3 ‐mediated regulation of cell expansion in Arabidopsis thaliana
Summary: Cell expansion is crucial for organ morphogenesis in multicellular organisms. Apoplast acidification triggers plant cell expansion. Plant hormones and transcription factors such as TEOSINTE BRANCHED, CYCLOIDEA, and PROLIFERATING CELL NUCLEAR ANTIGEN BINDING FACTORs (TCPs) control cell expansion. However, details regarding the regulatory mechanism of cell expansion for organ morphogenesis remain unclear. In this study, we used molecular, biochemical, cellular, genetic, atomic force microscopy, and tensile testing analyses and showed that miR319‐targeted TCPs integrated cell expansion with organ morphogenesis in Arabidopsis thaliana . We found that TCPs directly induce the expression of genes encoding cell wall–loosening proteins and SMALL AUXIN UP RNAs (SAURs), activators of plasma membrane–localized H + ‐ATPases. TCP‐mediated activation of plasma membrane–localized H + ‐ATPases stimulates apoplast acidification, reduces cell wall stiffness, promotes cell expansion, and thus exaggerates elongation of the hypocotyl. Ectopic expression of a SAUR gene in sextuple tcp mutant plants substantially recovered the hypocotyl morphology of the tcp mutant, providing genetic evidence of TCP ‐mediated SAUR regulation. Collectively, our data show that TCPs regulate apoplast acidification for cell expansion.
- Open Access
TCP3-mediated regulation of cell expansion in Arabidopsis thaliana
Cell expansion is crucial for organ morphogenesis in multicellular organisms. Apoplast acidification triggers plant cell expansion. Plant hormones and transcription factors such as TEOSINTE BRANCHED, CYCLOIDEA, and PROLIFERATING CELL NUCLEAR ANTIGEN BINDING FACTORs (TCPs) control cell expansion. However, details regarding the regulatory mechanism of cell expansion for organ morphogenesis remain unclear. In this study, we used molecular, biochemical, cellular, genetic, atomic force microscopy, and tensile testing analyses and showed that miR319-targeted TCPs integrated cell expansion with organ morphogenesis in Arabidopsis thaliana. We found that TCPs directly induce the expression of genes encoding cell wall loosening proteins and SMALL AUXIN UP RNAs (SAURs), activators of plasma membrane-localized H+-ATPases. TCP-mediated activation of plasma membrane-localized H+-ATPases stimulates apoplast acidification, reduce cell stiffness, promote cell expansion, and thus exaggerate elongation of the hypocotyl. Ectopic expression of a SAUR gene in sextuple tcp mutant plants substantially recovered the hypocotyl morphology of the tcp mutant, providing genetic evidence of TCP-mediated SAUR regulation. Collectively, our data show that TCPs regulate apoplast acidification for cell expansion.
Open AccessTCP3-mediated regulation of cell expansion in Arabidopsis thaliana
Cell expansion is crucial for organ morphogenesis in multicellular organisms. Apoplast acidification triggers plant cell expansion. Plant hormones and transcription factors such as TEOSINTE BRANCHED, CYCLOIDEA, and PROLIFERATING CELL NUCLEAR ANTIGEN BINDING FACTORs (TCPs) control cell expansion. However, details regarding the regulatory mechanism of cell expansion for organ morphogenesis remain unclear. In this study, we used molecular, biochemical, cellular, genetic, atomic force microscopy, and tensile testing analyses and showed that miR319-targeted TCPs integrated cell expansion with organ morphogenesis in Arabidopsis thaliana. We found that TCPs directly induce the expression of genes encoding cell wall loosening proteins and SMALL AUXIN UP RNAs (SAURs), activators of plasma membrane-localized H+-ATPases. TCP-mediated activation of plasma membrane-localized H+-ATPases stimulates apoplast acidification, reduce cell stiffness, promote cell expansion, and thus exaggerate elongation of the hypocotyl. Ectopic expression of a SAUR gene in sextuple tcp mutant plants substantially recovered the hypocotyl morphology of the tcp mutant, providing genetic evidence of TCP-mediated SAUR regulation. Collectively, our data show that TCPs regulate apoplast acidification for cell expansion.
- Open Access
- 7 February 2024
- Published by MDPI AG in International Journal of Molecular Sciences
- Vol. 25 (4) , 2010
Regulatory Mechanisms of Transcription Factors in Plant Morphology and Function 2.0
In plants, gene regulation underlies organ development and responses to environmental changes
- 7 February 2024
- Published by MDPI AG in International Journal of Molecular Sciences
- Vol. 25 (4) , 2010
Open AccessRegulatory Mechanisms of Transcription Factors in Plant Morphology and Function 2.0
In plants, gene regulation underlies organ development and responses to environmental changes
- Open Access
- 11 April 2023
- Published by MDPI AG in International Journal of Molecular Sciences
- Vol. 24 (8) , 7039
Regulatory Mechanisms of Transcription Factors in Plant Morphology and Function
Plants develop organs such as flowers and leaves with different morphologies
- 11 April 2023
- Published by MDPI AG in International Journal of Molecular Sciences
- Vol. 24 (8) , 7039
Open AccessRegulatory Mechanisms of Transcription Factors in Plant Morphology and Function
Plants develop organs such as flowers and leaves with different morphologies
- Open Access
- 11 October 2022
- Published by Frontiers Media SA in Frontiers in Plant Science
- Vol. 13, 1026664
Production of beneficial lignans in heterologous host plants
Production of beneficial lignans in heterologous host plants
- 11 October 2022
- Published by Frontiers Media SA in Frontiers in Plant Science
- Vol. 13, 1026664
Open AccessProduction of beneficial lignans in heterologous host plants
Production of beneficial lignans in heterologous host plants
- Open Access
- 28 May 2020
- Published by Springer Nature in Scientific Reports
- Vol. 10 (1) , 1-2
Author Correction: Identification of a binding protein for sesamin and characterization of its roles in plant growth
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
- 28 May 2020
- Published by Springer Nature in Scientific Reports
- Vol. 10 (1) , 1-2
Open AccessAuthor Correction: Identification of a binding protein for sesamin and characterization of its roles in plant growth
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
- Open Access
- 7 May 2020
- Published by Springer Nature in Scientific Reports
- Vol. 10 (1) , 1
Author Correction: Identification of a binding protein for sesamin and characterization of its roles in plant growth
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
- 7 May 2020
- Published by Springer Nature in Scientific Reports
- Vol. 10 (1) , 1
Open AccessAuthor Correction: Identification of a binding protein for sesamin and characterization of its roles in plant growth
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
- 28 October 2019
- Published by Wiley in Rapid Communications in Mass Spectrometry
- Vol. 34 (7) , e8625
Practical optimization of liquid chromatography/mass spectrometry conditions and pretreatment methods toward the sensitive quantification of auxin in plants
Rationale: The plant hormone auxin, indole‐3‐acetic acid, regulates many aspects of plant growth and development. Auxin quantification should offer broad insights into its mechanistic action in plants. However, limited auxin content in plant tissues hampers the establishment of quantification methods without the highest graded instruments or deeply specialized experimental techniques. Methods: In this study, we detailed optimized conditions for high‐performance liquid chromatography coupled with triple‐quadrupole mass spectrometry (LC/MS). We compared LC/MS conditions, such as columns, mobile phases, parameters of acquisition methods (selective or multiple ion monitoring), dwell times (DTs), and channel numbers, using differentially mixed authentic auxin and its related compounds. We further investigated pretreatment methods through the optimization of auxin recovery and irrelative compound removal from plant tissues prior to the LC/MS analysis. Results: Our LC/MS analysis demonstrated the particular importance of the column, DTs, and channel numbers on detection sensitivity. Our comparative analysis developed optimal pretreatment methods, including the pulverization of plants, concentration of extract through centrifugal evaporation, and removal of irrelative metabolites using liquid–liquid extraction and a spin filter. We injected plant samples into our LC/MS system, quantified auxin and eight related compounds in a single measurement, and determined the auxin increase in an auxin over‐producing mutant. Conclusions: Our practical optimization of LC/MS conditions and pretreatment methods provides detailed experimental processes toward the sensitive quantification of auxin from 10 mg of plant tissue. These processes have not always been clearly documented; therefore, our protocol could broadly contribute to technical advances in plant growth and development research.
- 28 October 2019
- Published by Wiley in Rapid Communications in Mass Spectrometry
- Vol. 34 (7) , e8625
Practical optimization of liquid chromatography/mass spectrometry conditions and pretreatment methods toward the sensitive quantification of auxin in plants
Rationale: The plant hormone auxin, indole‐3‐acetic acid, regulates many aspects of plant growth and development. Auxin quantification should offer broad insights into its mechanistic action in plants. However, limited auxin content in plant tissues hampers the establishment of quantification methods without the highest graded instruments or deeply specialized experimental techniques. Methods: In this study, we detailed optimized conditions for high‐performance liquid chromatography coupled with triple‐quadrupole mass spectrometry (LC/MS). We compared LC/MS conditions, such as columns, mobile phases, parameters of acquisition methods (selective or multiple ion monitoring), dwell times (DTs), and channel numbers, using differentially mixed authentic auxin and its related compounds. We further investigated pretreatment methods through the optimization of auxin recovery and irrelative compound removal from plant tissues prior to the LC/MS analysis. Results: Our LC/MS analysis demonstrated the particular importance of the column, DTs, and channel numbers on detection sensitivity. Our comparative analysis developed optimal pretreatment methods, including the pulverization of plants, concentration of extract through centrifugal evaporation, and removal of irrelative metabolites using liquid–liquid extraction and a spin filter. We injected plant samples into our LC/MS system, quantified auxin and eight related compounds in a single measurement, and determined the auxin increase in an auxin over‐producing mutant. Conclusions: Our practical optimization of LC/MS conditions and pretreatment methods provides detailed experimental processes toward the sensitive quantification of auxin from 10 mg of plant tissue. These processes have not always been clearly documented; therefore, our protocol could broadly contribute to technical advances in plant growth and development research.
- Open Access
- 14 June 2019
- Published by Springer Nature in Scientific Reports
- Vol. 9 (1) , 8631
Identification of a binding protein for sesamin and characterization of its roles in plant growth
Sesamin is a furofuran-type lignan that is found abundantly in seeds of Sesamum indicum (sesame) and has been widely accepted as a dietary supplement with positive effects on human health. The biological activity of sesamin in human cells and organs has been analysed extensively, although comparatively few studies show biological functions for sesamin in planta. Herein we screened sesamin-binding proteins (SBP) from sesame seedling extracts using sesamin-immobilized nano-beads. In subsequent peptide mass fingerprinting analyses, we identified a SBP, Steroleosin B, which is one of the membrane proteins found in oil bodies. In addition, pull-down assays and saturation transfer difference-nuclear magnetic resonance (STD-NMR) experiments demonstrated that sesamin binds directly to recombinant Steroleosin B in vitro. Finally, ectopic accumulations of sesamin and Steroleosin B in transgenic Arabidopsis thaliana plants induced severe growth defects including suppression of leaf expansion and root elongation. Collectively, these results indicate that sesamin influences tissue development in the presence of Steroleosin B.
- 14 June 2019
- Published by Springer Nature in Scientific Reports
- Vol. 9 (1) , 8631
Open AccessIdentification of a binding protein for sesamin and characterization of its roles in plant growth
Sesamin is a furofuran-type lignan that is found abundantly in seeds of Sesamum indicum (sesame) and has been widely accepted as a dietary supplement with positive effects on human health. The biological activity of sesamin in human cells and organs has been analysed extensively, although comparatively few studies show biological functions for sesamin in planta. Herein we screened sesamin-binding proteins (SBP) from sesame seedling extracts using sesamin-immobilized nano-beads. In subsequent peptide mass fingerprinting analyses, we identified a SBP, Steroleosin B, which is one of the membrane proteins found in oil bodies. In addition, pull-down assays and saturation transfer difference-nuclear magnetic resonance (STD-NMR) experiments demonstrated that sesamin binds directly to recombinant Steroleosin B in vitro. Finally, ectopic accumulations of sesamin and Steroleosin B in transgenic Arabidopsis thaliana plants induced severe growth defects including suppression of leaf expansion and root elongation. Collectively, these results indicate that sesamin influences tissue development in the presence of Steroleosin B.
- Open Access
- 1 November 2018
- Published by Elsevier in Plant Science
- Vol. 276, 105-110
A hidden link between leaf development and senescence
- 1 November 2018
- Published by Elsevier in Plant Science
- Vol. 276, 105-110
Open AccessA hidden link between leaf development and senescence