KAKENHI (Grants-in-Aid for Scientific Research) -
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Grant number：23H04873 2023.4 - 2028.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Transformative Research Areas (A)
Authorship：Coinvestigator(s)
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Novel sequencing method for serinol nucleic acid by using hybridization
Grant number：23K26774 2023.4 - 2026.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B)
Authorship：Principal investigator
Grant amount：\18850000 （ Direct Cost: \14500000 、 Indirect Cost：\4350000 ）
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Visualization of biomolecular interaction by using fluorescent barcodes
Grant number：22K19107 2022.6 - 2024.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Research (Exploratory)
Kashida Hiromu
Authorship：Principal investigator
Grant amount：\6500000 （ Direct Cost: \5000000 、 Indirect Cost：\1500000 ）
In this study, we aimed to develop a method to visualize interactions among biomolecules by using color-changing fluorescent barcodes (CCFB). First, we analyzed strand displacement reaction of acyclic D-threoninol nucleic acid and revealed optimal chain length and temperature. We prepared a barcode which changes its color three times. Fluorescent measurements indicated that the barcode worked as designed. Moreover, we tried to visualize protein-protein interaction by using proximity ligation assay. As a result, interaction could be visualized by using fluorescently labeled DNAs. From these results, we successfully developed basic technologies necessary for interactome imaging in cells.
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Development of Curved Nanowires and Their Application to Nanotechnology
Grant number：22H00331 2022.4 - 2026.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (A)
Authorship：Coinvestigator(s)
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Detection of biomolecules by using chiral amplification system composed of artificial nucleic acids
Grant number：20H02858 2020.4 - 2023.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Scientific Research (B)
Kashida Hiromu
Authorship：Principal investigator
Grant amount：\17940000 （ Direct Cost: \13800000 、 Indirect Cost：\4140000 ）
In this study, we aimed to develop a chiral amplification system utilizing serinol nucleic acid (SNA). First, we prepared a one-dimensional nano structure by hybridizing achiral SNA strands. When chiral nucleic acid was added, CD intensity drastically increased. Thus, chiral amplification system triggered by duplex formation was successfully developed for the first time. Then we modified SNA nano structures with pyrene. The structure expressed circularly polarized luminescence (CPL) upon the addition of chiral nucleic acids. We also succeeded to develop a chiral amplification system triggered by DNA.
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Development of fluorobarcode that can detect multiple biomolecules simultaneously
Grant number：19K22250 2019.6 - 2021.3
Grants-in-Aid for Scientific Research Grant-in-Aid for Challenging Research (Exploratory)
Kashida Hiromu
Authorship：Principal investigator
Grant amount：\6500000 （ Direct Cost: \5000000 、 Indirect Cost：\1500000 ）
Fluorescent imaging is one of the most essential tools in biology. However, the number of detectable molecules was severely restricted due to spectral overlaps of fluorophores. In this study, we aimed to prepare fluorescent barcode, in which emission color changes depending on the color sequence. We found that emission color of fluorescent barcode can change in pre-determined order. We also succeeded in multiplexed imaging of polystyrene beads and proteins in cell.
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Investigation of dye interaction and preparation of functional pi-assembly figuration by DNA scaffold
Grant number：17H05150 2017.4 - 2019.3
Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)
Authorship：Principal investigator
Grant amount：\6240000 （ Direct Cost: \4800000 、 Indirect Cost：\1440000 ）
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Novel method for structural analyses of nucleic acids by using orientation dependent FRET system
Grant number：16H05925 2016.4 - 2020.3
Kashida Hiromu
Authorship：Principal investigator
Grant amount：\25350000 （ Direct Cost: \19500000 、 Indirect Cost：\5850000 ）
In this study, we aimed to develop a versatile method to analyze double helical structures of nucleic acids by using orientation dependence of Forster resonance energy transfer (FRET). First, we developed another FRET pair for analyses of larger complexes of nucleic acids. We also found that energy transfer between identical chromophores can also be used for structural analyses. Damaged DNA like gapped DNA, A-tract and RNA structures were successfully analyzed by using the developed method. Furthermore, we succeeded in analyses of the interaction between DNA and small molecules by using orientation dependence of FRET.
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Development of artificial nucleic acids forming multi-stranded structures
Grant number：16K14031 2016.4 - 2018.3
Kashida Hiromu
Authorship：Principal investigator
Grant amount：\3770000 （ Direct Cost: \2900000 、 Indirect Cost：\870000 ）
Natural nucleic acids can form a triplex and a quadruplex by forming hydrogen bonds at both sides of purine bases. In this study, we synthesized novel artificial nucleic acids bearing novel nucleobases, which have hydrogen bonding sites at both sides. And we found that a hexaplex was successfully formed by these nucleic acids. The hexaplex was stabilized in the presence of divalent cations and low pH, indicating the potential of the hexaplex as pH and metal ion sensors. Molecular modelling calculation indicated that the hexaplex has a very unique structure with a pore at its center. It could be applied as novel supramolecular motifs and ion channels.
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細胞内イメージングに向けた超高感度核酸プローブの開発
2014.4 - 2016.3
科学研究費補助金 新学術領域研究（研究領域提案型・公募研究）
Authorship：Principal investigator
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細胞内イメージングに向けた超高感度核酸プローブの開発
2012.4 - 2014.3
科学研究費補助金 新学術領域研究（研究領域提案型・公募研究）
Authorship：Principal investigator
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“ＤＮＡドット”を活用した高感度ラベル化法の開発
2010.4 - 2012.3
科学研究費補助金 若手研究(B)
樫田啓
Authorship：Principal investigator
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核酸とのコンジュゲーションによる色素会合体調製法の確立
2007.4 - 2009.3
科学研究費補助金 若手（スタートアップ）
Authorship：Principal investigator