Details of the Researcher

PHOTO

Yusuke Sato
Section
Graduate School of Science
Job title
Associate Professor
Degree

  • 博士（理学）（東北大学）

  • 修士（理学）（東北大学）

Committee Memberships 2

  • 日本分析化学会東北支部　日本分析化学会東北支部幹事

    2010/04 - Present

  • 日本分析化学会東北支部　日本分析化学会東北支部若手代表

    2016/04 - 2022/03

Professional Memberships 3

  • 日本膜学会

    2025/04 - Present

  • 日本化学会

  • 日本分析化学会

Research Interests 2

  • 生体機能関連化学

  • 分析化学

Research Areas 1

  • Nanotechnology/Materials / Analytical chemistry /

Awards 6

  1. 令和6年度東北分析化学賞

    2024/12　日本分析化学会東北支部

  2. 科学技術分野の文部科学大臣表彰若手科学者賞

    2021/04

  3. 平成29年度進歩賞

    2018/03　日本化学会　核酸構造特異的な蛍光プローブの創製と分析化学的応用

  4. 日本分析化学会2014年度奨励賞

    2014/09/18　日本分析化学会

  5. 第２８回井上研究奨励賞

    2012/02/03　井上科学振興財団

  6. 2009年度日本分析化学会東北支部奨励賞

    2009/12　日本分析化学会東北支部

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Papers 71

  1. Uptake of small extracellular vesicles by recipient cells is facilitated by paracrine adhesion signaling

    Koichiro M. Hirosawa, Yusuke Sato, Rinshi S. Kasai, Eriko Yamaguchi, Naoko Komura, Hiromune Ando, Ayuko Hoshino, Yasunari Yokota, Kenichi G. N. Suzuki

    Nature Communications　16　(1)　2025/03/12

    Publisher: Springer Science and Business Media LLC

    DOI： 10.1038/s41467-025-57617-9 　

    eISSN： 2041-1723

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    Abstract Small extracellular vesicles (sEVs) play crucial roles in intercellular communication. However, the internalization of individual sEVs by recipient cells has not been directly observed. Here, we examined these mechanisms using state-of-the-art imaging techniques. Single-molecule imaging shows that tumor-derived sEVs can be classified into several subtypes. Simultaneous single-sEV particle tracking and observation of super-resolution movies of membrane invaginations in living cells reveal that all sEV subtypes are internalized via clathrin-independent endocytosis mediated by galectin-3 and lysosome-associated membrane protein-2C, while some subtypes that recruited raft markers are internalized through caveolae. Integrin β1 and talin-1 accumulate in recipient cell plasma membranes beneath all sEV subtypes. Paracrine, but not autocrine, sEV binding triggers Ca2+ mobilization induced by the activation of Src family kinases and phospholipase Cγ. Subsequent Ca2+-induced activation of calcineurin–dynamin promotes sEV internalization, leading to the recycling pathway. Thus, we clarified the detailed mechanisms of sEV internalization driven by paracrine adhesion signaling.

  2. Viral Membrane-Targeting Amphipathic Helical Peptide-Based Fluorogenic Probes for the Analysis of Infectious Titers of Enveloped Viruses

    Yusuke Sato, Yusaku Hatanaka, Yoshitaka Sato, Kota Matsumoto, Shion Osana, Ryoichi Nagatomi, Seiichi Nishizawa

    Analytical Chemistry　2025/01/22

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acs.analchem.4c04852 　

    ISSN： 0003-2700

    eISSN： 1520-6882

  3. Design of triplex-forming peptide nucleic acid-based fluorescent probes for forced intercalation sensing of double-stranded RNA structures

    Yusuke Sato, Takaya Sato, En Ting Tabitha Lee, Toshiki Chiba, Takaaki Tanabe, Yukina Yoshino, Seiichi Nishizawa

    Analytical Sciences　41　(5)　531-539　2025/01/17

    Publisher: Springer Science and Business Media LLC

    DOI： 10.1007/s44211-024-00713-5 　

    ISSN： 0910-6340

    eISSN： 1348-2246

  4. Design of deep-red emissive forced intercalation-induced light-up peptide as an indicator for the HIV-1 TAR RNA-ligand assay: integration of benzo[c,d]indole-quinoline (BIQ) cyanine dye into Tat peptide

    Akunna Francess Ujuagu, Yusuke Sato, En Ting Tabitha Lee, Seiichi Nishizawa

    Analytical Sciences　40　(11)　2089-2095　2024/08/05

    Publisher: Springer Science and Business Media LLC

    DOI： 10.1007/s44211-024-00642-3 　

    ISSN： 0910-6340

    eISSN： 1348-2246

  5. Fine-tuning of highly bright benzo[c,d]indole-oxazolopyridine cyanine dye for nucleolar RNA imaging in living cells

    Nao Togashi, Masaaki Nagaoka, Kei Higuchi, Yukina Yoshino, Yawen Wu, Yusuke Sato, Seiichi Nishizawa

    Talanta Open　9　100308-100308　2024/08

    Publisher: Elsevier BV

    DOI： 10.1016/j.talo.2024.100308 　

    ISSN： 2666-8319

  6. Immobilization of Liposomes into Porous Anodized Aluminum Oxide for On-Demand Release by Ultrasonic Irradiation: Implications for Drug Delivery

    Masahiro Okada, Yusuke Sato, Toshihiko Ogura, Tetsuji Itoh, Seiichi Nishizawa

    ACS Applied Nano Materials　7　(14)　17074-17080　2024/07/17

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acsanm.4c03267 　

    ISSN： 2574-0970

    eISSN： 2574-0970

  7. Design of synthetic peptide-based fluorescence probes for turn-on detection of hyaluronan

    Xinyu Fan, Yusuke Sato, Yudai Shiraki, Seiichi Nishizawa

    Analytical Sciences　40　(4)　609-614　2024/01/12

    Publisher: Springer Science and Business Media LLC

    DOI： 10.1007/s44211-023-00491-6 　

    ISSN： 0910-6340

    eISSN： 1348-2246

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    Abstract Herein, we designed and examined a series of fluorescent peptide-based probes for turn-on detection of hyaluronan (HA), a member of the glycosaminoglycan family. We utilized two kinds of synthetic HA-binding peptides as the binding unit for HA, and each peptide was coupled with three kinds of environment-sensitive fluorophores as the signaling unit. From the examination of the peptides, fluorophores, and the position and number of fluorophore modification, we found that X7 peptide (RYPISRPRKR) labelled with an aggregation-induced emission (AIE) fluorogen, tetraphenylethene (TPE), at the N-terminal (named TPE-X7) did function as a light-up probe for HA. The response of TPE-X7 was highly selective to higher molecular weight HA in comparison with lower ones, having the possible potential for the analysis of HA size. TPE-X7 was also applicable to the quantification of HA in synovial fluids. Graphical abstract

  8. Albumin Hydrogel–Coated Mesoporous Silica Nanoparticle as a Carrier of Cationic Porphyrin and Ratiometric Fluorescence pH Sensor

    Hidetoshi Shinoda, Raiha Higano, Takashi Oizumi, Asako J. Nakamura, Toshio Kamijo, Mio Takahashi, Masaaki Nagaoka, Yusuke Sato, Akira Yamaguchi

    ACS Applied Bio Materials　7　(2)　1204-1213　2024/01/11

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acsabm.3c01103 　

    ISSN： 2576-6422

    eISSN： 2576-6422

  9. Forced intercalation-induced light-up peptides as fluorogenic indicators for the HIV-1 TAR RNA-ligand assay

    En Ting Tabitha Lee, Yusuke Sato, Akunna F. Ujuagu, Seiichi Nishizawa

    The Analyst　149　(16)　4179-4186　2024

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d4an00530a 　

    ISSN： 0003-2654

    eISSN： 1364-5528

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    New fluorogenic indicators for HIV-1 TAR RNA have been developed for fluorescence indicator displacement (FID) assay based on forced intercalation of thiazole orange unit integrated into the middle of transactivator of transcription (Tat) peptide.

  10. Evaluation of respiratory and secretory activities of multicellular spheroids via electrochemiluminescence imaging

    Kaoru Hiramoto, Keika Komatsu, Ryota Shikuwa, An Konno, Yusuke Sato, Ayumi Hirano-Iwata, Kosuke Ino, Hitoshi Shiku

    Electrochimica Acta　458　142507-142507　2023/08

    Publisher: Elsevier BV

    DOI： 10.1016/j.electacta.2023.142507 　

    ISSN： 0013-4686

  11. Synthetic DNA binders for fluorescence sensing of thymine glycol-containing DNA duplexes and inhibition of endonuclease activity Peer-reviewed

    Yusuke Sato, Yoshihide Takaku, Toshiaki Nakano, Ken Akamatsu, Dai Inamura, Seiichi Nishizawa

    Chemical communication　in press　2023/05

    DOI： 10.1039/D3CC01501G 　

  12. Cationic Oligopeptides with Amino Groups as Synthetic Nucleolar Localization Signals for the Rational Design of Nucleolus-Staining Probes

    Michiyuki Suzuki, Yusuke Sato, Nao Togashi, Seiichi Nishizawa

    ACS Omega　8　(10)　9592-9596　2023/02/28

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acsomega.3c00116 　

    ISSN： 2470-1343

    eISSN： 2470-1343

  13. Inhibition of SARS-CoV-2 nucleocapsid protein–RNA interaction by guanosine oligomeric RNA

    Ryoya Sekine, Satsuki Tsuno, Hayato Irokawa, Kazuhiro Sumitomo, Tianxue Han, Yusuke Sato, Seiichi Nishizawa, Kouki Takeda, Shusuke Kuge

    The Journal of Biochemistry　173　(6)　447-457　2023/02/07

    Publisher: Oxford University Press (OUP)

    DOI： 10.1093/jb/mvad008 　

    ISSN： 0021-924X

    eISSN： 1756-2651

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    Abstract The interaction of the β-coronavirus severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) nucleocapsid (N) protein with genomic RNA is initiated by specific RNA regions and subsequently induces the formation of a continuous polymer with characteristic structural units for viral formation. We hypothesized that oligomeric RNAs, whose sequences are absent in the 29.9-kb genome sequence of SARS-CoV-2, might affect RNA–N protein interactions. We identified two such hexameric RNAs, In-1 (CCGGCG) and G6 (GGGGGG), and investigated their effects on the small filamentous/droplet-like structures (< a few μm) of N protein–genomic RNA formed by liquid–liquid phase separation. The small N protein structures were sequence-specifically enhanced by In-1, whereas G6 caused them to coalesce into large droplets. Moreover, we found that a guanosine 12-mer (G12, GGGGGGGGGGGG) expelled preexisting genomic RNA from the small N protein structures. The presence of G12 with the genomic RNA suppressed the formation of the small N protein structures, and alternatively apparently altered phase separation to induce the formation of large droplets with unclear phase boundaries. We showed that the N-terminal RNA-binding domain is required for the stability of the small N protein structures. Our results suggest that G12 may be a strong inhibitor of the RNA–N protein interaction.

  14. Self-Assembly and Disassembly of Membrane Curvature-Sensing Peptide-Based Deep-Red Fluorescent Probe for Highly Sensitive Sensing of Exosomes

    Kaito Ohira, Yusuke Sato, Seiichi Nishizawa

    ACS Sensors　8　(2)　522-526　2023/01/25

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acssensors.2c02498 　

    ISSN： 2379-3694

    eISSN： 2379-3694

  15. Classical thiazole orange and its regioisomer as fluorogenic probes for nucleolar RNA imaging in living cells

    Mengmeng He, Yusuke Sato, Seiichi Nishizawa

    The Analyst　148　(3)　636-642　2023

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d2an01804g 　

    ISSN： 0003-2654

    eISSN： 1364-5528

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    Thiazole orange (TO) performs as a promising fluorogenic dye for nucleolar RNA imaging in living cells. More interestingly, 2TO, a regioisomer of TO, performs much better and has superior selectivity for RNA in both solution and living cells.

  16. Kinetic analysis of highly effective triplex formation between a small molecule–peptide nucleic acid conjugate probe and the influenza A virus RNA promoter region at neutral pH

    Chioma Uche Okeke, Hiromasa Miura, Yusuke Sato, Seiichi Nishizawa

    Organic & Biomolecular Chemistry　21　(16)　3402-3410　2023

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d3ob00262d 　

    ISSN： 1477-0520

    eISSN： 1477-0539

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    The binding of PNA–small molecule conjugate probes to IAV RNA was examined by means of a stopped-flow technique. It is highly likely that conjugation is the key factor to realize the effective triplex formation of PNA with natural nucleobases at neutral pH.

  17. Multiplex microRNA detection

    Yusuke Sato

    Analytical Sciences　38　(9)　1123-1124　2022/08/29

    Publisher: Springer Science and Business Media LLC

    DOI： 10.1007/s44211-022-00152-0 　

    ISSN： 0910-6340

    eISSN： 1348-2246

  18. Bright and Light-Up Sensing of Benzo[c,d]indole-oxazolopyridine Cyanine Dye for RNA and Its Application to Highly Sensitive Imaging of Nucleolar RNA in Living Cells

    Kei Higuchi, Yusuke Sato, Nao Togashi, Michiyuki Suzuki, Yukina Yoshino, Seiichi Nishizawa

    ACS Omega　7　(27)　23744-23748　2022/06/29

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acsomega.2c02408 　

    ISSN： 2470-1343

    eISSN： 2470-1343

  19. Fluorescence Sensing of the Panhandle Structure of the Influenza A Virus RNA Promoter by Thiazole Orange Base Surrogate-Carrying Peptide Nucleic Acid Conjugated with Small Molecule. International-journal Peer-reviewed

    Yusuke Sato, Hiromasa Miura, Takaaki Tanabe, Chioma Uche Okeke, Akiko Kikuchi, Seiichi Nishizawa

    Analytical chemistry　94　(22)　7814-7822　2022/06/07

    DOI： 10.1021/acs.analchem.1c05488 　

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    We have developed a new class of triplex-forming peptide nucleic acid (PNA)-based fluorogenic probes for sensing of the panhandle structure of the influenza A virus (IAV) RNA promoter region. Here, a small molecule (DPQ) capable of selectively binding to the internal loop structure was conjugated with triplex-forming forced intercalation of the thiazole orange (tFIT) probe with natural PNA nucleobases. The resulting conjugate, tFIT-DPQ, showed a significant light-up response (83-fold) upon strong (Kd = 107 nM) and structure-selective binding to the IAV RNA promoter region under physiological conditions (pH 7.0, 100 mM NaCl). We demonstrated the conjugation of these two units through the suitable spacer was key to show useful binding and fluorogenic signaling functions. tFIT-DPQ facilitated the sensitive and selective detection of IAV RNA based on its binding to the promoter region. Furthermore, we found that tFIT-DPQ could work as a sensitive indicator for screening of test compounds targeting the IAV RNA promoter region in the fluorescence indicator displacement assay.

  20. Triplex-Forming Peptide Nucleic Acid Probes Having Cyanine Base Surrogates for Fluorogenic Sensing of Double-Stranded RNA

    Seiichi NISHIZAWA, Takaya SATO, En Ting Tabitha LEE, Naonari SAKAMOTO, Toshiki CHIBA, Takaaki TANABE, Yukina YOSHINO, Yuki TAKAHASHI, Yusuke SATO

    BUNSEKI KAGAKU　71　(3)　133-144　2022/03/05

    Publisher: Japan Society for Analytical Chemistry

    DOI： 10.2116/bunsekikagaku.71.133 　

    ISSN： 0525-1931

  21. Molecular Design of Fluorogenic Probes for Targeting rRNA: Indicator in FID Assay and Dye for Imaging of Nucleolar RNA in Living Cells

    Seiichi NISHIZAWA, En Ting Tabitha LEE, Yukina YOSHINO, Sayaka YAJIMA, Masafumi ROKUGAWA, Yusuke SATO

    BUNSEKI KAGAKU　70　(12)　703-714　2021/12/05

    Publisher: Japan Society for Analytical Chemistry

    DOI： 10.2116/bunsekikagaku.70.703 　

    ISSN： 0525-1931

  22. Spectroscopic, thermodynamic and kinetic analysis of selective triplex formation by peptide nucleic acid with double‐stranded <scp>RNA</scp> over its <scp>DNA</scp> counterpart

    Takaya Sato, Yusuke Sato, Seiichi Nishizawa

    Biopolymers　113　(1)　2021/09/03

    Publisher: Wiley

    DOI： 10.1002/bip.23474 　

    ISSN： 0006-3525

    eISSN： 1097-0282

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    Abstract Unlike conventional triplex‐forming oligonucleotide (TFO), triplex‐forming peptide nucleic acid (PNA) can tightly bind with double‐stranded RNA (dsRNA) than double‐stranded DNA (dsDNA). Here, we performed spectroscopic, thermodynamic and kinetic experiments for triplex formation by PNA to examine different binding behaviors between PNA − dsRNA and PNA − dsDNA triplexes. We found 9‐mer PNA (cytosine content of 66%) formed the thermally stable triplex with dsRNA compared to dsDNA over a wide range of pH (5.5‐8.0), salt concentration (50‐500 mM NaCl). Both the calorimetric binding constant and the association rate constant for dsRNA were larger than those for dsDNA, indicating the favorable association process for the PNA − dsRNA triplex formation. Comparison with the DNA/RNA heteroduplexes revealed that the DNA strand was detrimental to the triplex stability for PNA, a contrasting result for conventional TFO. The keys underlying the difference in the triplex formation of PNA with different duplexes appear to be the conformational adoptability and the geometric compatibility of PNA to fit the deep, narrow major groove of dsRNA and the helical rigidity difference of the duplexes. Our results emphasize the importance of both the sugar puckering of the duplex and the appropriate conformational flexibility of PNA for the triplex formation.

  23. Fluorogenic Indicator for Targeting HIV-1 TAR RNA: Evaluation for Binging and Signaling Functions of Monomethine Cyanine Dye Thiazole Orange and Its Application to FID Assay

    Yoshiko ITO, Yusuke SATO, Norio TERAMAE, Seiichi NISHIZAWA

    BUNSEKI KAGAKU　70　(3)　149-157　2021/03/05

    Publisher: Japan Society for Analytical Chemistry

    DOI： 10.2116/bunsekikagaku.70.149 　

    ISSN： 0525-1931

  24. Deep-red fluorogenic cyanine dyes carrying an amino group-terminated side chain for improved RNA detection and nucleolar RNA imaging

    Yusuke Sato, Yugo Igarashi, Michiyuki Suzuki, Kei Higuchi, Seiichi Nishizawa

    RSC Advances　11　(56)　35436-35439　2021

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d1ra05872j 　

    eISSN： 2046-2069

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    The introduction of an amino-group-terminated side chain into deep-red emissive benzo[c,d]indole–quinoline monomethine cyanine dye has led to the improved detection of RNAs as well as the imaging of nucleolar RNAs in cells.

  25. Chloro-Substituted Naphthyridine Derivative and Its Conjugate with Thiazole Orange for Highly Selective Fluorescence Sensing of an Orphan Cytosine in the AP Site-Containing Duplexes

    Chun-xia Wang, Yusuke Sato, Takashi Sugimoto, Norio Teramae, Seiichi Nishizawa

    Applied Sciences　10　(12)　4133-4133　2020/06/16

    Publisher: MDPI AG

    DOI： 10.3390/app10124133 　

    eISSN： 2076-3417

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    Fluorescent probes with the binding selectivity to specific structures in DNAs or RNAs have gained much attention as useful tools for the study of nucleic acid functions. Here, chloro-substituted 2-amino-5,7-dimethyl-1,8-naphthyridine (ClNaph) was developed as a strong and highly selective binder for target orphan cytosine opposite an abasic (AP) site in the DNA duplexes. ClNaph was then conjugated with thiazole orange (TO) via an alkyl spacer (ClNaph–TO) to design a light-up probe for the detection of cytosine-related mutations in target DNA. In addition, we found the useful binding and fluorescence signaling of the ClNaph–TO conjugate to target C in AP site-containing DNA/RNA hybrid duplexes with a view toward sequence analysis of microRNAs.

  26. Design of Fluorescent Peptide Nucleic Acid Probes Carrying Cyanine Dyes for Targeting Double-Stranded RNAs for Analytical Applications

    Yusuke Sato

    Bulletin of the Chemical Society of Japan　93　(3)　406-413　2020/03/15

    Publisher: The Chemical Society of Japan

    DOI： 10.1246/bcsj.20190361 　

    ISSN： 0009-2673

    eISSN： 1348-0634

  27. Conjugating pyrene onto PNA-based fluorescent probes for improved detection selectivity toward double-stranded siRNA

    Yusuke Sato, Yuki Takahashi, Takaaki Tanabe, Seiichi Nishizawa

    Organic & Biomolecular Chemistry　18　(21)　4009-4013　2020

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d0ob00794c 　

    ISSN： 1477-0520

    eISSN： 1477-0539

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    <p>PNA-based fluorescent probes conjugated with the pyrene unit exhibited the improved detection selectivity for double-stranded siRNA.</p>

  28. Amphipathic helical peptide-based fluorogenic probes for a marker-free analysis of exosomes based on membrane-curvature sensing

    Yusuke Sato, Kazuki Kuwahara, Kenta Mogami, Kenta Takahashi, Seiichi Nishizawa

    RSC Advances　10　(63)　38323-38327　2020

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d0ra07763a 　

    eISSN： 2046-2069

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    <p>Fluorogenic probes based on membrane curvature sensing-amphipathic helical peptides have been developed for a marker-free exosome analysis.</p>

  29. Small molecule–PNA oligomer conjugates for rRNA A-site at neutral pH for FID assays

    En Ting Tabitha Lee, Yusuke Sato, Seiichi Nishizawa

    Chemical Communications　56　(95)　14976-14979　2020

    Publisher: Royal Society of Chemistry (RSC)

    DOI： 10.1039/d0cc06084d 　

    ISSN： 1359-7345

    eISSN： 1364-548X

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    <p>A conjugation strategy was used to synthesize light-up probes for the bacterial rRNA A-site with strong binding affinity and selectivity.</p>

  30. Deep-Red Light-up Signaling of Benzo[c,d]indole–Quinoline Monomethine Cyanine for Imaging of Nucleolar RNA in Living Cells and for Sequence-Selective RNA Analysis

    Yukina Yoshino, Yusuke Sato, Seiichi Nishizawa

    Analytical Chemistry　91　(22)　14254-14260　2019/10/09

    Publisher: American Chemical Society (ACS)

    DOI： 10.1021/acs.analchem.9b01997 　

    ISSN： 0003-2700

    eISSN： 1520-6882

  31. Strong binding and off-on signaling functions of deep-red fluorescent TO-PRO-3 for influenza A virus RNA promoter region Peer-reviewed

    Y. Sato, Y. Aiba, S. Yajima, T. Tanabe, K. Higuchi, S. Nishizawa

    ChemBioChem　20　2752-2756　2019/10

  32. Programmable RNA Detection with a Fluorescent RNA Aptamer Using Optimized Three-way Junction Formation Peer-reviewed

    Y. Furuhata, M. Kobayashi, R. Maruyama, Y. Sato, K. Makino, T. Michiue, H. Yui, S. Nishizawa, K. Yoshimoto

    RNA　25　(5)　590-599　2019/02

    Publisher: Cold Spring Harbor Laboratory

    DOI： 10.1261/rna.069062.118 　

    ISSN： 1355-8382

    eISSN： 1469-9001

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    RNAs play essential roles in various cellular processes and can be used as biomarkers. Hence, it is important to detect endogenous RNA for understanding diverse cellular functions and diagnosing diseases. To construct a low-cost and easy-to-use RNA detection probe, a chemically unmodified RNA aptamer that binds to a pro-fluorophore to increase its fluorescence is desirable. Here, we focused on Broccoli, a superior variant of Spinach, which is a well-known fluorescent RNA aptamer that binds to DFHBI-1T and emits green fluorescence. We experimentally characterized Broccoli and predicted that it forms a G-quadruplex–based DFHBI-1T recognition region sandwiched between two stems. Based on this, we designed a Broccoli-based RNA detection probe (BRD probe) composed of a sequence of destabilized Broccoli fused with complementary sequences against target RNA. The resulting probe with its target RNA formed a stable three-way junction, named the MT2 three-way junction, which contributed to efficient refolding of the Broccoli structure and allowed for programmable RNA detection with high signal-to-noise ratio and sensitivity. Interestingly, the MT2 three-way junction also could be applied to probe construction of a truncated form of Spinach (Baby Spinach). The BRD and Baby Spinach–based RNA detection probes (BSRD probe) exhibited up to 48- and 140-fold fluorescence enhancements in the presence of their target RNAs and detected small amounts of target RNA that were as low as 160 and 5 nM, respectively. Thus, we experimentally characterized the higher order structure of Broccoli and developed structure-switching aptamer probes for highly sensitive, programmable, RNA detection using an MT2 three-way junction.

  33. Enhanced binding affinity of siRNA overhang-binding fluorescent probes by conjugation with cationic oligopeptides for the improved analysis of siRNA delivery process Peer-reviewed

    Y. Sato, M. Kaneko, T. Sato, S. Nakata, Y. Takahashi, S. Nishizawa

    ChemBioChem　20　408-414　2019/02

  34. Trimethine cyanine dyes as deep-red fluorescent indicators with high selectivity to the internal loop of the bacterial A-site RNA Peer-reviewed

    Y. Sato, S. Yajima, A. Taguchi, K. Baba, M. Nakagomi, Y. Aiba, S. Nishizawa

    Chem. Commun.　55　3183-3186　2019/01

  35. Design of a fluorogenic PNA probe capable of simultaneous recognition of 3’-overhang and double-stranded sequences of small interfering RNAs Peer-reviewed

    T. Tanabe, T. Sato, Y. Sato, S. Nishizawa

    RSC Advances　8　42095-42099　2018/12

  36. Design and synthesis of RNA-binding fluorescent probes for analysis of small RNAs Peer-reviewed

    Y. Sato, T. Sato, S. Nishizawa

    67　531-540　2018/09

  37. Fluorescent trimethylated naphthyridine derivative with an aminoalkyl side chain as the tightest non-aminoglycoside ligand for the bacterial A-site RNA Peer-reviewed

    Y. Sato, M. Rokugawa, S. Ito, S. Yajima, H. Sugawara, N. Teramae, S. Nishizawa

    Chem. Eur. J.　24　13862-13870　2018/09

  38. Effect of Cavity Size of Mesoporous Silica on Short DNA Duplex Stability Peer-reviewed

    Tsubasa Masuda, Yuuta Shibuya, Shota Arai, Sayaka Kobayashi, Sotaro Suzuki, Jun Kijima, Tetsuji Itoh, Yusuke Sato, Seiichi Nishizawa, Akira Yamaguchi

    Langmuir　34　(19)　5545-5550　2018/05/15

    Publisher: American Chemical Society

    DOI： 10.1021/acs.langmuir.8b00437 　

    ISSN： 1520-5827 0743-7463

  39. Highly sensitive programmable RNA detection using fluorescent RNA aptamer Peer-reviewed

    Furuhata Yuichi, Kobayahshi Mizuki, Maruyama Ryo, Sato Yusuke, Makino Kurumi, Michiue Tatsuo, Yui Hiroharu, Nishizawa Seiichi, Yoshimoto Keitaro

    ABSTRACTS OF PAPERS OF THE AMERICAN CHEMICAL SOCIETY　255　2018/03/18

    ISSN： 0065-7727

  40. Improved boronate affinity electrophoresis by optimization of the running buffer for a single-step separation of piRNA from mouse testis total RNA Peer-reviewed

    Yusuke Sato, Daijiro Iwasawa, Kuo Ping Hui, Rena Nakagomi, Seiichi Nishizawa

    Analytical Sciences　34　(5)　627-630　2018

    Publisher: Japan Society for Analytical Chemistry

    DOI： 10.2116/analsci.17N024 　

    ISSN： 1348-2246 0910-6340

  41. Red-emissive triplex-forming PNA probes carrying cyanine base surrogates for fluorescence sensing of double-stranded RNA Peer-reviewed

    Toshiki Chiba, Takaya Sato, Yusuke Sato, Seiichi Nishizawa

    ORGANIC & BIOMOLECULAR CHEMISTRY　15　(37)　7765-7769　2017/10

    DOI： 10.1039/c7ob02077e 　

    ISSN： 1477-0520

    eISSN： 1477-0539

  42. Optimization of the Alkyl Linker of TO Base Surrogate in Triplex-Forming PNA for Enhanced Binding to Double-Stranded RNA Peer-reviewed

    Takaya Sato, Yusuke Sato, Seiichi Nishizawa

    CHEMISTRY-A EUROPEAN JOURNAL　23　(17)　4079-4088　2017/03

    DOI： 10.1002/chem.201604676 　

    ISSN： 0947-6539

    eISSN： 1521-3765

  43. Triplex-Forming Peptide Nucleic Acid Probe Having Thiazole Orange as a Base Surrogate for Fluorescence Sensing of Double-stranded RNA Peer-reviewed

    Takaya Sato, Yusuke Sato, Seiichi Nishizawa

    JOURNAL OF THE AMERICAN CHEMICAL SOCIETY　138　(30)　9397-9400　2016/08

    DOI： 10.1021/jacs.6b05554 　

    ISSN： 0002-7863

  44. Pteridine derivatives modified with a guanidine for binding and sensing an orphan guanine in RNA duplexes Peer-reviewed

    Yusuke Sato, Takahiro Asami, Yu Toriyabe, Takaya Sato, Norio Teramae, Seiichi Nishizawa

    Chemistry Letters　45　(8)　982-984　2016

    Publisher: Chemical Society of Japan

    DOI： 10.1246/cl.160425 　

    ISSN： 1348-0715 0366-7022

  45. Lysine linkage in abasic site-binding ligand-thiazole orange conjugates for improved binding affinity to orphan nucleobases in DNA/RNA hybrids Peer-reviewed

    Yusuke Sato, Hiroki Saito, Daisuke Aoki, Norio Teramae, Seiichi Nishizawa

    CHEMICAL COMMUNICATIONS　52　(100)　14446-14449　2016

    DOI： 10.1039/c6cc07236d 　

    ISSN： 1359-7345

    eISSN： 1364-548X

  46. Fluorescence Imaging of siRNA Delivery by Peptide Nucleic Acid-based Probe Peer-reviewed

    Takaya Sato, Yusuke Sato, Kenta Iwai, Shusuke Kuge, Norio Teramae, Seiichi Nishizawa

    ANALYTICAL SCIENCES　31　(4)　315-320　2015/04

    DOI： 10.2116/analsci.31.315 　

    ISSN： 0910-6340

    eISSN： 1348-2246

  47. A label-free and sensitive fluorescent method for the detection of uracil-DNA glycosylase activity Peer-reviewed

    Jing Tao, Panshu Song, Yusuke Sato, Seiichi Nishizawa, Norio Teramae, Aijun Tong, Yu Xiang

    CHEMICAL COMMUNICATIONS　51　(5)　929-932　2015

    DOI： 10.1039/c4cc06170e 　

    ISSN： 1359-7345

    eISSN： 1364-548X

  48. Synthetic fluorescent probes capable of selective recognition of 3 '-overhanging nucleotides for siRNA delivery imaging Peer-reviewed

    Takaya Sato, Yusuke Sato, Kenta Iwai, Shusuke Kuge, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　51　(8)　1421-1424　2015

    DOI： 10.1039/c4cc08800j 　

    ISSN： 1359-7345

    eISSN： 1364-548X

  49. Trinucleotide duplex formation inside a confined nanospace under supercooled conditions Peer-reviewed

    Hiroyuki Arafune, Akira Yamaguchi, Manato Namekawa, Yusuke Sato, Tetsuji Itoh, Ryoko Yoshida, Norio Teramae

    NATURE COMMUNICATIONS　5　2014/10

    DOI： 10.1038/ncomms6151 　

    ISSN： 2041-1723

  50. Abasic site-binding ligands conjugated with cyanine dyes for "off-on" fluorescence sensing of orphan nucleobases in DNA duplexes and DNA-RNA hybrids Peer-reviewed

    Yusuke Sato, Megumi Kudo, Yu Toriyabe, Shota Kuchitsu, Chun-Xia Wang, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　50　(5)　515-517　2014

    DOI： 10.1039/c3cc47717g 　

    ISSN： 1359-7345

    eISSN： 1364-548X

  51. The effect of LNA nucleobases as enhancers for the binding of amiloride to an abasic site in DNA/DNA and DNA/RNA duplexes Peer-reviewed

    Yusuke Sato, Tetsushi Sato, Takaya Sato, Seiichi Nishizawa, Norio Teramae

    ORGANIC & BIOMOLECULAR CHEMISTRY　12　(37)　7250-7256　2014

    DOI： 10.1039/c4ob00977k 　

    ISSN： 1477-0520

    eISSN： 1477-0539

  52. Rational Design for Cooperative Recognition of Specific Nucleobases Using -Cyclodextrin-Modified DNAs and Fluorescent Ligands on DNA and RNA Scaffolds Peer-reviewed

    Futamura, Akika, Uemura, Asuka, Imoto, Takeshi, Kitamura, Yusuke, Matsuura, Hirotaka, Wang, Chun-Xia, Ichihashi, Toshiki, Sato, Yusuke, Teramae, Norio, Nishizawa, Seiichi, Ihara, Toshihiro

    CHEMISTRY-A EUROPEAN JOURNAL　19　(32)　10526-10535　2013/08

    DOI： 10.1002/chem.201300985 　

    ISSN： 0947-6539

    eISSN： 1521-3765

  53. Competitive Binding of Abasic Site-Binding Ligands and Masking Ligands to DNA Duplexes for the Analysis of Single-Base Mutation Peer-reviewed

    Yusuke Sato, Tomoe Kageyama, Seiichi Nishizawa, Norio Teramae

    ANALYTICAL SCIENCES　29　(1)　15-19　2013/01

    DOI： 10.2116/analsci.29.15 　

    ISSN： 0910-6340

  54. 2,4-Diamino-6,7-dimethylpteridine as a fluorescent ligand for binding and sensing an orphan cytosine in RNA duplexes Peer-reviewed

    Yusuke Sato, Yu Toriyabe, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　49　(85)　9983-9985　2013

    DOI： 10.1039/c3cc46085a 　

    ISSN： 1359-7345

  55. Competitive Assay for Theophylline Based on an Abasic Site-Containing DNA Duplex Aptamer and a Fluorescent Ligand Peer-reviewed

    Yusuke Sato, Yushuang Zhang, Seiichi Nishizawa, Takehiro Seino, Kodai Nakamura, Minjie Li, Norio Teramae

    CHEMISTRY-A EUROPEAN JOURNAL　18　(40)　12719-12724　2012/10

    DOI： 10.1002/chem.201201298 　

    ISSN： 0947-6539

  56. Ratiometric Fluorescent Signaling of Small Molecule, Environmentally Sensitive Dye Conjugates for Detecting Single-Base Mutations in DNA Peer-reviewed

    Chun-xia Wang, Yusuke Sato, Megumi Kudo, Seiichi Nishizawa, Norio Teramae

    CHEMISTRY-A EUROPEAN JOURNAL　18　(31)　9481-9484　2012/07

    DOI： 10.1002/chem.201200219 　

    ISSN： 0947-6539

  57. Base Pairing at the Abasic Site in DNA Duplexes and Its Application in Adenosine Aptasensors Peer-reviewed

    Yuanfeng Pang, Zhiai Xu, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    CHEMBIOCHEM　13　(3)　436-442　2012/02

    DOI： 10.1002/cbic.201100666 　

    ISSN： 1439-4227

  58. Highly selective binding of naphthyridine with a trifluoromethyl group to cytosine opposite an abasic site in DNA duplexes Peer-reviewed

    Yusuke Sato, Yushuang Zhang, Takehiro Seino, Takashi Sugimoto, Seiichi Nishizawa, Norio Teramae

    ORGANIC & BIOMOLECULAR CHEMISTRY　10　(20)　4003-4006　2012

    DOI： 10.1039/c2ob25513h 　

    ISSN： 1477-0520

  59. Strong and Selective Binding of Amiloride to an Abasic Site in RNA Duplexes: Thermodynamic Characterization and MicroRNA Detection Peer-reviewed

    Yusuke Sato, Toshiki Ichihashi, Seiichi Nishizawa, Norio Teramae

    ANGEWANDTE CHEMIE-INTERNATIONAL EDITION　51　(26)　6369-6372　2012

    DOI： 10.1002/anie.201201790 　

    ISSN： 1433-7851

  60. Label-Free Molecular Beacon System Based on DNAs Containing Abasic Sites and Fluorescent Ligands That Bind Abasic Sites Peer-reviewed

    Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    CHEMISTRY-A EUROPEAN JOURNAL　17　(41)　11650-11656　2011/10

    DOI： 10.1002/chem.201100384 　

    ISSN： 0947-6539

  61. Fluorescent aptasensors based on conformational adaptability of abasic site-containing aptamers in combination with abasic site-binding ligands Peer-reviewed

    Zhiai Xu, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    BIOSENSORS & BIOELECTRONICS　26　(12)　4733-4738　2011/08

    DOI： 10.1016/j.bios.2011.05.051 　

    ISSN： 0956-5663

  62. Fluorescent trimethyl-substituted naphthyridine as a ligand for C-C mismatch detection in CCG trinucleotide repeats Peer-reviewed

    Yusuke Sato, Atsuko Honjo, Daisuke Ishikawa, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　47　(20)　5885-5887　2011

    DOI： 10.1039/c1cc11370d 　

    ISSN： 1359-7345

  63. Enhancement in fluorescence response by a quencher for amiloride upon binding to thymine opposite an abasic site in a DNA duplex Peer-reviewed

    Yusuke Sato, Jing Tian, Toshiki Ichihashi, Yuka Chinda, Zhiai Xu, Yuanfeng Pang, Seiichi Nishizawa, Norio Teramae

    ANALYTICA CHIMICA ACTA　675　(1)　49-52　2010/08

    DOI： 10.1016/j.aca.2010.06.042 　

    ISSN： 0003-2670

  64. Effect of the bases flanking an abasic site on the recognition of nucleobase by amiloride Peer-reviewed

    Arivazhagan Rajendran, Chunxia Zhao, Burki Rajendar, Viruthachalam Thiagarajan, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    BIOCHIMICA ET BIOPHYSICA ACTA-GENERAL SUBJECTS　1800　(6)　599-610　2010/06

    DOI： 10.1016/j.bbagen.2010.03.007 　

    ISSN： 0304-4165

  65. Effect of substituents of alloxazine derivatives on the selectivity and affinity for adenine in AP-site-containing DNA duplexes Peer-reviewed

    Burki Rajendar, Arivazhagan Rajendran, Zhiqiang Ye, Eriko Kanai, Yusuke Sato, Seiichi Nishizawa, Marek Sikorski, Norio Teramae

    ORGANIC & BIOMOLECULAR CHEMISTRY　8　(21)　4949-4959　2010

    DOI： 10.1039/c0ob00057d 　

    ISSN： 1477-0520

  66. Abasic site-based DNA aptamers for analytical applications Invited Peer-reviewed

    Seiichi Nishizawa, Yusuke Sato, Zhiai Xu, Kotaro Morita, Minjie Li, Norio Teramae

    SUPRAMOLECULAR CHEMISTRY　22　(7-8)　467-476　2010

    DOI： 10.1080/10610278.2010.484865 　

    ISSN： 1061-0278

  67. Signal-Off and Signal-On Design for a Label-Free Aptasensor Based on Target-Induced Self-Assembly and Abasic-Site-Binding Ligands Peer-reviewed

    Zhiai Xu, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    CHEMISTRY-A EUROPEAN JOURNAL　15　(40)　10375-10378　2009

    DOI： 10.1002/chem.200901226 　

    ISSN： 0947-6539

  68. Label-free aptamer-based sensor using abasic site-containing DNA and a nucleobase-specific fluorescent ligand Peer-reviewed

    Zhiai Xu, Kotaro Morita, Yusuke Sato, Qing Dai, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　(42)　6445-6447　2009

    DOI： 10.1039/b908345f 　

    ISSN： 1359-7345

  69. Improvement of base selectivity and binding affinity by controlling hydrogen bonding motifs between nucleobases and isoxanthopterin: Application to the detection of T/C mutation Peer-reviewed

    Burki Rajendar, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    BIOORGANIC & MEDICINAL CHEMISTRY LETTERS　17　(13)　3682-3685　2007/07

    DOI： 10.1016/j.bmcl.2007.04.033 　

    ISSN： 0960-894X

  70. Enhancement of the binding ability of a ligand for nucleobase recognition by introducing a methyl group Peer-reviewed

    Q Dai, CY Xu, Y Sato, K Yoshimoto, S Nishizawa, N Teramae

    ANALYTICAL SCIENCES　22　(2)　201-203　2006/02

    ISSN： 0910-6340

  71. Electrochemical SNPs detection using an abasic site-containing DNA on a gold electrode Peer-reviewed

    Kotaro Morita, N. B. Sankaran, Weimin Huang, Takehiro Seino, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    CHEMICAL COMMUNICATIONS　(22)　2376-2378　2006

    DOI： 10.1039/b517391d 　

    ISSN： 1359-7345

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Misc. 18

  1. Triplex-Forming Peptide Nucleic Acid Probe Having Thiazole Orange as a Base Surrogate for Fluorescence Sensing of Double-stranded RNA (vol 138, pg 9397, 2016)

    Takaya Sato, Yusuke Sato, Seiichi Nishizawa

    JOURNAL OF THE AMERICAN CHEMICAL SOCIETY　139　(9)　3567-3567　2017/03

    DOI： 10.1021/jacs.7b01636 　

    ISSN： 0002-7863

  2. RNA二重鎖を読み解く新技術－三重鎖核酸形成を利用する蛍光プローブ

    佐藤貴哉, 佐藤雄介, 西澤精一

    月刊「化学」　72　(4)　47-52　2017

    Publisher: 化学同人

    ISSN： 0451-1964

  3. RNA解析・イメージングのための蛍光性核酸プローブの分子設計

    佐藤貴哉, 佐藤雄介, 西澤精一

    ぶんせき　2017　(10)　459-463　2017

    Publisher: 日本分析化学会

    ISSN： 0386-2178

  4. Recent Progress in Abasic Site-binding Small Molecules for Detecting Single-base Mutations in DNA

    Seiichi Nishizawa, Yusuke Sato, Norio Teramae

    Analytical Sciences　30　(1)　137-142　2014/01/10

    DOI： 10.2116/analsci.30.137 　

    ISSN： 0910-6340

    eISSN： 1348-2246

  5. シクロデキストリン修飾DNA複合体の協同的塩基認識デザイン

    二村朱香, 伊本剛, 北村裕介, 佐藤雄介, 西澤精一, 井原敏博

    シクロデキストリンシンポジウム講演要旨集　30th　184-185　2013/08/27

  6. 核酸分析を指向した協同的塩基認識プログラム

    二村朱香, 伊本剛, 北村裕介, 西澤精一, 佐藤雄介, 寺前紀夫, 井原敏博

    分析化学討論会講演要旨集　72nd　6　2012/05/05

  7. 核酸を足場とした特異的塩基認識機構のプログラミング

    二村朱香, 伊本剛, 北村裕介, 城昭典, 西澤精一, 佐藤雄介, 寺前紀夫, 井原敏博

    日本化学会講演予稿集　92nd　(3)　1047　2012/03/09

    ISSN： 0285-7626

  8. Influence of substituent modifications on the binding of 2-amino-1,8-naphthyridines to cytosine opposite an AP site in DNA duplexes: thermodynamic characterization

    Yusuke Sato, Seiichi Nishizawa, Keitaro Yoshimoto, Takehiro Seino, Toshiki Ichihashi, Kotaro Morita, Norio Teramae

    NUCLEIC ACIDS RESEARCH　37　(5)　1411-1422　2009/04

    DOI： 10.1093/nar/gkn1079 　

    ISSN： 0305-1048

    eISSN： 1362-4962

  9. Small-Molecule Binding at an Abasic Site of DNA: Strong Binding of Lumiflavin for Improved Recognition of Thymine-Related Single Nucleotide Polymorphisms

    N. B. Sankaran, Yusuke Sato, Fuyuki Sato, Burki Rajendar, Kotaro Morita, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    JOURNAL OF PHYSICAL CHEMISTRY B　113　(5)　1522-1529　2009/02

    DOI： 10.1021/jp808576t 　

    ISSN： 1520-6106

  10. 2-Aminopurine-Modified Abasic-Site-Containing Duplex DNA for Highly Selective Detection of Theophylline

    Minjie Li, Yusuke Sato, Seiichi Nishizawa, Takehiro Seino, Kodai Nakamura, Norio Teramae

    JOURNAL OF THE AMERICAN CHEMICAL SOCIETY　131　(7)　2448-+　2009/02

    DOI： 10.1021/ja8095625 　

    ISSN： 0002-7863

  11. Effect of methyl substitution in a ligand on the selectivity and binding affinity for a nucleobase: A case study with isoxanthopterin and its derivatives

    Burki Rajendar, Arivazhagan Rajendran, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    BIOORGANIC & MEDICINAL CHEMISTRY　17　(1)　351-359　2009/01

    DOI： 10.1016/j.bmc.2008.10.062 　

    ISSN： 0968-0896

  12. Fluorescence and electrochemical detection of pyrimidine/purine transversion by a ferrocenyl aminonaphthyridine derivative

    Kotaro Morita, Yusuke Sato, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    ORGANIC & BIOMOLECULAR CHEMISTRY　6　(2)　266-268　2008

    DOI： 10.1039/b716682f 　

    ISSN： 1477-0520

  13. Development of label-free molecular beacons based on abasic sitebinding fluorescence molecules

    Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　52　(46)　121-122　2008

    DOI： 10.1093/nass/nrn062 　

  14. Competitive binding of small ligands to nucleobases in AP site-containing DNA duplexes

    Tomoe Kageyama, Yusuke Sato, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　52　(46)　119-120　2008

    DOI： 10.1093/nass/nrn061 　

  15. Effect of an alkyl amino group on the binding of 1,8-naphthyridines to AP site-containing DNA duplexes

    Toshiki Ichihashi, Yusuke Sato, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　52　(46)　117-118　2008

    DOI： 10.1093/nass/nrn060 　

  16. Electrochamical and fluorescence detection of cytosine-related SNPs using ferrocenyl naphthyridine derivative

    Kotaro Morita, Yusuke Sato, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　51　295-296　2007

  17. Strong binding of naphthyridine derivatives to cytosine in an AP site-containing DNA duplex and their application to fluorescence detection of single nucleotide polymorphisms

    Yusuke Sato, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　51　313-314　2007

  18. Thermodynamic characterization of the binding of naphthyridines to AP site-containing DNA duplexes

    Yusuke Sato, Takehiro Seino, Seiichi Nishizawa, Norio Teramae

    Nucleic Acids Symp. Ser.　50　219-220　2006

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Presentations 22

  1. Design of fluorescent peptide probes for exosome detection

    SATO Yusuke

    2018/08/30

  2. RNA・エクソソームの構造的特徴に着目した分子プローブの設計と応用 Invited

    佐藤 雄介

    第36回九州分析化学若手の会夏季セミナー　2018/07/27

  3. 両親媒性αヘリックスをベースとしたエクソソーム解析プローブの開発 Invited

    佐藤 雄介

    第35回無機・分析化学コロキウム　2018/06/02

  4. Design of Fluorescent Probes Capable of Binding to the Specific Sites in Nucleic Acids and Their Analytical Application Invited

    SATO Yusuke

    2018/03/22

  5. RNA 構造を識別する分子プローブの設計と応用

    佐藤雄介

    第21回次世代医工学研究会　2017/09/14

  6. Design of siRNA overhanging structure-selective fluorescent probes International-presentation

    Yusuke Sato, Seiichi Nishizawa

    RSC Tokyo International Conference 2017　2017/09/07

  7. RNA・エキソソームを認識する分析プローブの開発

    佐藤雄介

    平成29年度日本分析化学会東北支部若手交流会　2017/07/14

  8. RNA構造を識別する蛍光性ペプチド核酸プローブの開発

    佐藤雄介

    第77回分析化学討論会　2017/05/27

  9. Synthetic fluorescent probes capable of selective binding to 3’-overhanging structures in double stranded RNAs for RNA interference study

    Yusuke Sato

    第54回日本生物物理学会年会　2016/11/25

  10. 細胞内siRNA解析を目指したペプチド核酸プローブの開発：カチオン性オリゴペプチド導入による機能改良

    佐藤雄介, 佐藤貴哉, 金子充雅, 西澤精一

    日本分析化学会年会第65年会　2016/09/14

  11. Design of siRNA-binding fluorescent probes for siRNA delivery analysis International-presentation

    Yusuke Sato, Takaya Sato, Mitsumasa Kaneko, Seiichi Nishizawa

    RNA2016　2016/06/28

  12. RNA構造を識別する蛍光性分子の開発

    佐藤雄介

    第33回無機・分析化学コロキウム　2016/06/03

  13. siRNAデリバリー過程解析を指向した蛍光性プローブの開発

    佐藤雄介, 佐藤貴哉, 金子充雅, 西澤精一

    第16回遺伝子デリバリー研究会シンポジウム　2016/05/16

  14. 核酸特定部位に結合する蛍光性分子の開発とその分析化学的応用

    日本分析化学会第63年会　2014/09/17

  15. 蛍光性プテリジン誘導体によるRNA一塩基識別

    第74回分析化学討論会　2014/05/24

  16. 細胞内RNA解析を指向した蛍光性プローブの開発

    生物物理学会 東北支部会2013　2013/12/13

  17. 細胞内siRNA解析を指向した蛍光性プローブの開発

    日本分析化学会第62年会　2013/09/10

  18. Label-free DNA aptasensors based on abasic site-binding fluoescence molecules International-presentation

    Y. Sato, Z. Xu, S. Nishizawa, N. Teramae

    平成21年度日本分光学会年次講演会　2009/11/16

  19. Affinity labeling based on abasic site-binding fluorescent molecules International-presentation

    Y. Sato, S. Nishizawa, N. Teramae

    The 6th International Foroum on CHemistry of Functional Organic Chemicals Period　2009/11/15

  20. 疎水場感受性蛍光色素を有するナフチリジン誘導体を用いた(CNG)nトリヌクレオチドリピート高感度蛍光検出

    佐藤雄介, 本城温子, 石川大佑, 西沢精一, 寺前紀夫

    分析化学会第58年会　2009/09/24

  21. ジアミノピラジン誘導体/脱塩基部位含有RNA二十差相互作用解析と小分子RNA検出

    佐藤雄介, 市橋俊希, 西沢精一, 寺前紀夫

    第24回生体機能関連化学シンポジウム　2009/09/13

  22. DNA二重鎖/リガンド相互作用を用いたアフィニティラベル化法の開発

    佐藤雄介, 西沢精一, 寺前紀夫

    平成21年度東日本分析若手交流会　2009/07/03

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Industrial Property Rights 3

  1. RNAが脂質膜に内包された製剤の品質管理技術の開発

    佐藤雄介, 西澤精一, 永富良一

    Property Type: Patent

  2. ウイルスRNAの複製と転写を阻害する複合体

    佐藤雄介, 西澤精一, 田邊貴昭, 三浦弘真, オケケ シオマ ウシュ, 川口敦史

    Property Type: Patent

  3. RNA検出用蛍光色素及びその使用方法

    西澤精一, 佐藤雄介, 芳野幸奈, 富樫奈央, 樋口啓

    Property Type: Patent

Research Projects 19

  1. エンベロープウイルス粒子に結合する分子プローブの創製とウイルス機能解析技術への応用

    佐藤 雄介

    Offer Organization: 科学技術振興機構

    System: 戦略的な研究開発の推進 創発的研究支援事業

    Institution: 東北大学

    2024 - 2030

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    本研究では、エンベロープウイルスの普遍的な構造、すなわち「エンベロープ内にゲノムが内包されている」構造を特異的に認識する分子プローブを設計・合成し、これらプローブを用いたウイルス粒子解析技術を創出することを目指します。ウイルス構成分子を解析する既存技術とは質的に異なり、ウイルス粒子構造を標的とする新たな分析技術を構築し、ウイルス機能解析・不均一性解明・可視化・創薬に展開しうる基盤技術を開拓します。

  2. Study of DNA damage and cellular response induced by laser filamentation

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Scientific Research (B)

    Institution: National Institutes for Quantum Science and Technology

    2024/04/01 - 2028/03/31

  3. 分子プローブによる膜小胞産生細菌スクリーニング技術の創製

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 科学研究費助成事業

    Category: 基盤研究(B)

    Institution: 東北大学

    2025/04 - 2028/03

  4. 精密迅速ウイルス感染力評価を指向した蛍光偏光応答性プローブの創製

    佐藤雄介

    Offer Organization: 旭硝子財団

    2024/04 - 2026/03

  5. Design of near-infrared and turn-on indicators for RNA-targeted drug screening

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Scientific Research (B)

    Institution: Tohoku University

    2022/04 - 2025/03

  6. Sub-classification of exosome based on the superficial chemical structure

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Challenging Research (Pioneering)

    Institution: Kyoto University

    2020/07/30 - 2023/03/31

  7. 蛍光プローブの結合反応に基づくエクソソーム性質解析 Competitive

    佐藤 雄介

    Offer Organization: 科学技術振興機構

    System: 戦略的創造研究推進事業 さきがけ

    2019/10 - 2023/03

  8. エクソソームの構造的特徴を捉える蛍光プローブの創出とマーカーフリー解析への応用 Competitive

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 挑戦的研究（萌芽）

    2019/04 - 2021/03

  9. 小分子RNA二重鎖イメージングを可能にする超高親和性近赤外蛍光プローブの開発 Competitive

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 若手研究(A)

    2017/04 - 2020/03

  10. Design, synthesis and analytical application of peptide-based RNA-binding ligands with high affinity and selectivity

    NISHIZAWA Seiichi

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Scientific Research (B)

    Institution: Tohoku University

    2016/04/01 - 2019/03/31

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    We recently proposed a new strategy for analyzing the siRNA delivery process based on affinity labeling with a peptide nucleic acid (PNA)-based fluorescent probe capable of selectively binding to the overhanging structures of siRNAs (Chem. Commun. 2015). Here, we have successfully prepared a new probe with improved binding affinity and imaging ability by conjugation with a cationic oligopeptide (ChemBioChem 2019). In addition, we have developed new fluorogenic sensing probes for double-stranded RNA (dsRNA) by integrating thiazole orange (TO) as a base surrogate into triplex-forming PNA (J. Am. Chem. Soc. 2016; Chem. Eur. J. 2017; Org . Biomol. Chem. 2017; Org . Biomol. Chem. 2018; RSC Advances 2018). Furthermore, we have developed useful fluorescent indicators for the assessment of the binding capabilities of various test compounds for the internal loop structure of the bacterial ribosomal decoding region of the aminoacyl-tRNA site (A-site) (Chem. Eur. J. 2018; Chem. Commun. 2019).

  11. siRNA創薬の細胞内デリバリーイメージングを指向したRNA結合性蛍光プローブの開発

    佐藤雄介

    Offer Organization: 豊田理研

    2017/04 - 2018/03

  12. 高曲率膜を識別するペプチドプローブの開発とエキソソーム解析への応用 Competitive

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 挑戦的萌芽研究

    2016/04 - 2018/03

  13. 細胞内RNA二重鎖構造を標的とした蛍光可視化プローブの開発

    佐藤雄介

    Offer Organization: 中谷医工計測技術振興財団

    2015/04 - 2016/03

  14. Development of fluorescent ligands for the analysis of non-coding RNA

    NISHIZAWA Seiichi, SATO Yusuke

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Scientific Research (B)

    Institution: Tohoku University

    2012/04/01 - 2015/03/31

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    In this work, new analytical methods using synthetic fluorescent ligands are successfully developed for the study of non-coding RNA, including trans-activation-responsive region (TAR) RNA of human immunodeficiency virus type 1 (HIV-1), microRNA, and small interfering RNA (siRNA). First, we report on promising binding and signaling functions of thiazole orange (TO) to recognize TAR RNA. We found that TO does bind to selectivity TAR RNA with a nanomolar affinity, and TO was utilized as a fluorescent indicator for the high-throughput screening assay to identify new class of scaffolds of HIV inhibitors. As for the detection of microRNA in vitro, fluorescent ligands are designed and synthesized based on abasic site-binding ligands that are conjugated with cyanine dyes. Furthermore, fluorescent probes are successfully developed based on peptide nucleic acids for intracellular delivery analysis of siRNA.

  15. Development of Micro Arrays for Analyzing Small RNAs

    TERAMAE Norio, YAMAGUCHI Akira, NISHIZAWA Seiichi, SATO Yusuke, XU Zhiai

    Offer Organization: Japan Society for the Promotion of Science

    System: Grants-in-Aid for Scientific Research

    Category: Grant-in-Aid for Scientific Research (S)

    Institution: Tohoku University

    2010/04/01 - 2015/03/31

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    This work aimed to develop new strategy of small RNA analysis based on the RNA-binding fluorescent ligands in confined nanopores. Toward this end, we focused on the design of fluorescent abasic site (AP site)-bidning ligands (APLs) in RNA or DNA/RNA duplexes. We successfully found useful G, C, A, or U-discriminating candidates targeting the duplexes. Moreover, new class of light-up fluorescent ligands was developed based on the conjugation of APLs with cyanine dyes. On the other hand, we revealed several unique features of confined spaces inside the silica and alumina nanopores. Especially, exothermic reactions such as cyclodextrin inclusion and DNA hybridization were found to be accelerated inside the nanopores under supercooled condition. Finally, we found possible applications to detect dozens of attomole nucleic acids and analyze their sequences with single nucleotide resolution by the binding of APL-cyanine dye conjugates inside the confined nanopores under supercooled conditions.

  16. siRNA を標的とする蛍光性リガンドの創成と細胞内解析への応用 Competitive

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 若手研究(B)

    2012/04 - 2014/03

  17. 細胞膜透過性を有するsiRNA検出用蛍光プローブの開発

    Offer Organization: 武田科学振興財団

    2013/04 -

  18. 蛍光性核酸結合リガンド群を用いたマルチカラー蛍光アッセイ法の開発 Competitive

    佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 研究活動スタートアップ支援

    2010/04 - 2012/03

  19. RNA非翻訳領域を標的とする核酸検出リガンドの創製と機能性RNA研究への応用

    寺前 紀夫, 西澤 精一, 徐 志愛, 佐藤 雄介

    Offer Organization: 日本学術振興会

    System: 科学研究費助成事業

    Category: 基盤研究(A)

    Institution: 東北大学

    2010 - 2010

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    タンパク質に翻訳されずに機能するRNAは,ノンコーディングRNA (ncRNA)と呼ばれる。ここ10年程の間に,ncRNAが関与する生物現象の発見が相次ぎ,生物学の知見が新しいものに塗替えられつつある。なかでもリボスイッチは,低分子化合物との特異的結合によって遺伝子発現調節を行うユニークなncRNAで,抗生物質の新たな標的として,あるいは遺伝子発現を制御しうる技術開発に繋がる研究対象として,特に注目されているncRNAファミリーの1つである。 本研究では,新たな研究領域への新たな分析ツールの提供を目指し,『ノンコーディングRNA,特にリボスイッチを標的とする蛍光性の小分子(リガンド)を開発し,これらの化合物に基づくRNA解析法並びに薬剤ハイスループットスクリーニング法を開発する』ことを目的とする。また,リボスイッチの他,『ヒト免疫不全ウイルス(HIV)のTrans-activation responsive region (TAR RNA)や16SリボソームRNAAサイト』といった遺伝子発現調節に関わるRNAの非翻訳領域を標的とする蛍光性リガンド開発も併せて試みる。 本年度(平成22年4月～5月)は,ピラジン誘導体(蛍光極大波長:～400nm)が抗生物質とほぼ同等の結合親和力でTAR RNAと結合しうることを見出すとともに(K_d=770nM),蛍光性ナフチリジン誘導体(蛍光極大波長:～400nm)がアミノグリコシド類に匹敵する結合力でAサイトに結合することを見出した(K_d=530nM)。 現在,より詳細な相互作用解析を進めており,それらの知見に基づいて結合機能及び蛍光応答特性の改良をさらに行うことで,ncRNAの新しい分析ツールになることが期待できる。

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Teaching Experience 4

  1. 化学A

  2. Frontiers in Science II

  3. 学問論演習

  4. 先端無機化学特論III