2026/06/29 更新

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写真a

スズキ リゲル
鈴木 理滋
SUZUKI RIGEL
所属
医学研究院 基礎医学部門 助教
医学部 医学科(併任)
職名
助教
外部リンク

研究分野

  • ライフサイエンス / 細胞生物学

  • ライフサイエンス / ウイルス学

学位

  • 博士(理学) ( 2017年3月 首都大学東京 )

研究テーマ・研究キーワード

  • 研究テーマ: B型肝炎ウイルス感染症

    研究キーワード: HBV

    研究期間: 2022年4月 - 現在

  • 研究テーマ: 新型コロナウイルス感染症

    研究キーワード: 新型コロナウイルス

    研究期間: 2020年2月 - 現在

受賞

  • 優秀ポスター賞

    2016年12月   文部科学省科学研究費・新学術領域研究(ユビキチン・ネオバイオロジー)  

論文

  • Analysis of HBV Genome Integration in Patients With HBV-Previously Infected NBNC-HCC 査読 国際誌

    Saito, T; Suzuki, R; Rahman, A; Mori, K; Rajib, SA; Kobayashi, N; Yamamoto, Y; Sithi, SN; Ichikawa, T; Orimo, T; Kakisaka, T; Liang, LH; Nao, N; Suzuki, S; Tamura, T; Satou, Y; Taketomi, A; Fukuhara, T

    HEPATOLOGY RESEARCH   2026年3月   ISSN:1386-6346 eISSN:1872-034X

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Hepatology Research  

    Aim: The incidence of non-B non-C hepatocellular carcinoma (NBNC-HCC), which is negative for Hepatitis B surface antigen and Hepatitis C virus antibodies, is on the rise. Relatively higher numbers of NBNC-HCC patients are Hepatitis B core antibody (HBcAb) positive, suggesting that previous HBV infection may play a role in NBNC-HCC development, though the exact mechanisms are unclear. This study aimed to investigate whether HBV genomes are integrated into the host genome of HBcAb-positive NBNC-HCC cases and how these integrations may contribute to cancer development and progression. Methods: HBV detection PCR using HBV-specific primers on DNA extracted from HBcAb-positive NBNC-HCC tissue samples was performed. Positive samples were further examined for HBV integration sites using Viral DNA-Capture sequencing Approach. Additionally, Hepatitis B core–related antigen (HBcrAg) serum levels were measured to assess whether they could be predictive for HBV detection PCR results. Results: Among 90 HBcAb-positive NBNC-HCC samples, HBV genome amplification was detected in 19 samples, and differences in HBcrAg status were observed according to HBV detection PCR results. Eighteen of these samples showed HBV integration. The HBV genome was integrated near the TERT gene in 7 samples, resulting in significantly increased TERT mRNA levels, in the KMT2B gene (3 samples), and downstream of the LOC441666 gene (2 samples). Conclusion: The integration sites we identified in our samples have been previously reported in HBV-related HCC, suggesting that HBV integration may also contribute to hepatocarcinogenesis in HBcAb-positive NBNC-HCC. Furthermore, HBcrAg could serve as a potential, noninvasive marker for detecting the HBV genome in these cases.

    DOI: 10.1111/hepr.70163

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  • Determinants of susceptibility to SARS-CoV-2 infection in murine ACE2 査読 国際誌

    Kondo, T; Suzuki, R; Yajima, H; Kawahara, S; Yamaya, K; Ichikawa, T; Tsujino, S; Suzuki, S; Tamura, T; Hashiguchi, T; Fukuhara, T

    JOURNAL OF VIROLOGY   99 ( 6 )   e0054325   2025年6月   ISSN:0022-538X eISSN:1098-5514

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Journal of Virology  

    Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) utilizes angiotensin-converting enzyme 2 (ACE2) as a receptor to enter host cells, and primary receptor recognition of the spike protein is a major determinant of the host range of SARS-CoV-2. Since the emergence of SARS-CoV-2, a considerable number of variants have emerged. However, the determinants of host tropism of SARS-CoV-2 remain elusive. We conducted infection assays with chimeric recombinant SARS-CoV-2 carrying the spike protein from 10 viral variants, assessing their entry efficiency using mammalian ACE2 orthologs from species that have close contact with humans. We found that only murine ACE2 exhibited different susceptibilities to infection with the SARS-CoV-2 variants. Moreover, we revealed that the mutation N501Y in the viral spike protein has a crucial role in determining the infectivity of cells expressing murine ACE2 and of mice in vivo. Next, we identified six amino acid substitutions at 24, 30, 31, 82, 83, and 353 in murine ACE2 that allowed for viral entry of the variants to which murine ACE2 was previously resistant. Furthermore, we showed that ACE2 from a species closely related to mice, Mus caroli, is capable of supporting entry of the viral variants that could not use murine ACE2. These results suggest that few ACE2 orthologs have different susceptibility to infection with SARS-CoV-2 variants as observed for murine ACE2. Collectively, our study reveals critical amino acids in ACE2 and the SARS-CoV-2 spike protein that are involved in the host tropism of SARS-CoV-2, shedding light on interspecies susceptibility to infection.

    DOI: 10.1128/jvi.00543-25

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  • NEDD4-binding protein 1 suppresses hepatitis B virus replication by regulating viral RNAs 査読 国際誌

    Kobayashi, N; Suzuki, S; Sakamoto, Y; Suzuki, R; Mori, K; Kosugi, Y; Saito, T; Ma, Y; Liang, LH; Izumi, T; Noda, K; Okuzaki, D; Kanegae, Y; Hayashi, S; Tanaka, Y; Yamashita, A; Moriishi, K; Matsuura, Y; Takeuchi, O; Tamura, T; Taketomi, A; Fukuhara, T

    JOURNAL OF GENERAL VIROLOGY   106 ( 3 )   2025年   ISSN:0022-1317 eISSN:1465-2099

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Journal of General Virology  

    Chronic infection with hepatitis B virus (HBV) (chronic HBV infection) places patients at increased risk for liver cirrhosis and hepatocellular carcinoma. Although nucleos(t)ide analogues are mainly used for the treatment of HBV, they require long-term administration and may lead to the emergence of drug-resistant mutants. Therefore, to identify targets for the development of novel anti-HBV drugs, we screened for HBV-suppressive host factors using a plasmid expression library of RNA-binding proteins (RBPs). We tested the effect of 132 RBPs on HBV replication by ectopically expressing these proteins along with HBV in hepatocellular carcinoma and evaluated the intracellular capsid-associated HBV DNA level. Our screen identified NEDD4-binding protein 1 (N4BP1) as having an anti-HBV effect. In hepatocellular carcinoma cell lines transfected or infected with HBV, the overexpression of N4BP1 decreased core-associated HBV DNA levels, while knockdown or knockout of the gene encoding N4BP1 rescued core-associated HBV DNA levels. N4BP1 possesses the KH-like and RNase domains, and both were required for the anti-HBV effect of N4BP1. Additionally, we measured levels of HBV pregenomic RNA (pgRNA) and covalently closed circular DNA in the RBP-transfected cells and confirmed that N4BP1 binds pgRNA directly and regulates both the 3.5 and 2.4/2.1 kb HBV RNA. In summary, N4BP1 is a newly identified host factor able to counteract HBV production by regulating 3.5 and 2.1/2.4 kb HBV RNA.

    DOI: 10.1099/jgv.0.002082

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  • The development of a rapid, high-throughput neutralization assay using a SARS-CoV-2 reporter 査読 国際誌

    Suzuki, R; Kamiyama, A; Ito, H; Kawashiro, K; Tomiyama, T; Tamura, T; Suzuki, S; Yoshizumi, T; Hotta, K; Fukuhara, T

    JOURNAL OF VIROLOGICAL METHODS   326   114894 - 114894   2024年5月   ISSN:0166-0934 eISSN:1879-0984

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Journal of Virological Methods  

    Many methods have been developed to measure the neutralizing capacity of antibodies to SARS-CoV-2. However, these methods are low throughput and can be difficult to quickly modify in response to emerging variants. Therefore, an experimental system for rapid and easy measurement of the neutralizing capacity of antibodies against various variants is needed. In this study, we developed an experimental system that can efficiently measure the neutralizing capacity of sera by using a GFP-carrying recombinant SARS-CoV-2 with spike proteins of multiple variants (B.1.1, BA.5, or XBB.1.5). For all 3 recombinant chimeric genomes generated, neutralizing antibody titers determined by measuring GFP fluorescence intensity correlated significantly with those calculated from viral RNA levels measured by RT-qPCR in the supernatant of infected cells. Furthermore, neutralizing antibody titers determined by visually assessing GFP fluorescence using microscopy were also significantly correlated with those determined by RT-qPCR. By using this high-throughput method, it is now possible to quickly and easily determine the neutralizing capacity of antibodies against SARS-CoV-2 variants.

    DOI: 10.1016/j.jviromet.2024.114894

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  • Neutralizing antibody responses and cellular responses against SARS-CoV-2 Omicron subvariant BA.5 after mRNA SARS-CoV-2 vaccination in kidney transplant recipients 査読

    Keita Kawashiro, Rigel Suzuki, Takuto Nogimori, Naoya Iwahara, Takayuki Hirose, Kazufumi Okada, Takuya Yamamoto, Takasuke Fukuhara, Kiyohiko Hotta, Nobuo Shinohara

    2024年1月

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    担当区分:筆頭著者   出版者・発行元:Research Square Platform LLC  

    Abstract

    Although the mRNA SARS-CoV-2 vaccine has improved the mortality rate in the general population, its efficacy against rapidly mutating virus strains, especially in kidney transplant recipients, remains unclear. We examined the anti-SARS-CoV-2 spike protein IgG antibody and neutralizing antibody titers and cellular immunity against B.1.1, BA.1, and BA.5 antigens in 73 uninfected kidney recipients and 17 uninfected healthy controls who received three doses of an mRNA SARS-CoV-2 vaccine. The IgG antibody titers were significantly lower in recipients than in healthy controls. Similarly, neutralizing antibody titers against three viral variants were significantly lower in recipients. When the virus was mutated, the neutralizing antibody titers decreased significantly in both groups. In cellular immunity analysis, the number of spike-specific CD8 + non-naïve T cells against three variants significantly decreased in recipients. Conversely, the frequency of spike-specific Th2 CD4 + T-cells in recipients was higher than that in healthy controls. Twenty recipients and seven healthy controls also received a bivalent omicron-containing booster vaccine, leading to increased IgG and neutralizing antibody titers in both groups. However, the increase was significantly lower in recipients. Recipients did not gain sufficient immunity with a third dose of vaccine, indicating a need to explore methods other than vaccines.

    DOI: 10.21203/rs.3.rs-3857039/v1

    その他リンク: https://www.researchsquare.com/article/rs-3857039/v1.html

  • Rational in silico design identifies two mutations that restore UT28K SARS-CoV-2 monoclonal antibody activity against Omicron BA.1 査読

    Tatsuhiko Ozawa, Yoshiki Ikeda, Liuan Chen, Rigel Suzuki, Atsushi Hoshino, Akira Noguchi, Shunsuke Kita, Yuki Anraku, Emiko Igarashi, Yumiko Saga, Noriko Inasaki, Shunta Taminishi, Jiei Sasaki, Yuhei Kirita, Hideo Fukuhara, Katsumi Maenaka, Takao Hashiguchi, Takasuke Fukuhara, Kenichi Hirabayashi, Hideki Tani, Hiroyuki Kishi, Hideki Niimi

    Structure   2024年1月   ISSN:0969-2126

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    担当区分:筆頭著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.str.2023.12.013

  • A third dose of the BNT162b2 mRNA vaccine sufficiently improves the neutralizing activity against SARS-CoV-2 variants in liver transplant recipients 査読 国際誌

    Tomiyama, T; Suzuki, R; Harada, N; Tamura, T; Toshida, K; Kosai-Fujimoto, Y; Tomino, T; Yoshiya, S; Nagao, Y; Takeishi, K; Itoh, S; Kobayashi, N; Ito, H; Yoshio, S; Kanto, T; Yoshizumi, T; Fukuhara, T

    FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY   13   1197349 - 1197349   2023年5月   ISSN:2235-2988

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Frontiers in Cellular and Infection Microbiology  

    Introduction: We examined the neutralizing antibody production efficiency of the second and third severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) vaccine doses (2<sup>nd</sup>- and 3<sup>rd</sup>-dose) and neutralizing activity on mutant strains, including, the Ancestral, Beta and Omicron strains using green fluorescent protein-carrying recombinant SARS-CoV-2, in living-donor liver transplantation (LDLT) recipients. Methods: The patients who were administered vaccines other than Pfizer- BioNTechBNT162b2 and who had coronavirus disease 2019 in this study period were excluded. We enrolled 154 LDLT recipients and 50 healthy controls. Result: The median time were 21 days (between 1<sup>st</sup> and 2<sup>nd</sup> vaccination) and 244 days (between 2<sup>nd</sup> and 3<sup>rd</sup> vaccination). The median neutralizing antibody titer after 2<sup>nd</sup>-dose was lower in LDLT recipients than in controls (0.46 vs 1.00, P<0.0001). All controls had SARS-CoV-2 neutralizing antibodies, whereas 39 LDLT recipients (25.3%) had no neutralizing antibodies after 2<sup>nd</sup>-dose; age at vaccination, presence of ascites, multiple immunosuppressive treatments, and mycophenolate mofetil treatment were significant risk factors for nonresponder. The neutralizing activities of recipient sera were approximately 3-fold and 5-fold lower than those of control sera against the Ancestral and Beta strains, respectively. The median antibody titer after 3<sup>rd</sup>-dose was not significantly different between recipients and controls (1.02 vs 1.22, p=0.0758); only 5% recipients was non-responder. The neutralizing activity after third dose to Omicron strains were enhanced and had no significant difference between two groups. Conclusion: Only the 2nd-dose was not sufficiently effective in recipients; however, 3rd-dose had sufficient neutralizing activity against the mutant strain and was as effective as that in healthy controls.

    DOI: 10.3389/fcimb.2023.1197349

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  • Smoking enhances the expression of angiotensin-converting enzyme 2 involved in the efficiency of severe acute respiratory syndrome coronavirus 2 infection 査読 国際誌

    Suzuki, R; Ono, Y; Noshita, K; Kim, KS; Ito, H; Morioka, Y; Tamura, T; Okuzaki, D; Tagawa, T; Takenaka, T; Yoshizumi, T; Shimamura, T; Iwami, S; Fukuhara, T

    MICROBIOLOGY AND IMMUNOLOGY   67 ( 1 )   22 - 31   2023年1月   ISSN:0385-5600 eISSN:1348-0421

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Microbiology and Immunology  

    Smoking is one of the risk factors most closely related to the severity of coronavirus disease 2019 (COVID-19). However, the relationship between smoking history and severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infectivity is unknown. In this study, we evaluated the ACE2 expression level in the lungs of current smokers, ex-smokers, and nonsmokers. The ACE2 expression level of ex-smokers who smoked cigarettes until recently (cessation period shorter than 6 months) was higher than that of nonsmokers and ex-smokers with a long history of nonsmoking (cessation period longer than 6 months). We also showed that the efficiency of SARS-CoV-2 infection was enhanced in a manner dependent on the angiotensin-converting enzyme 2 (ACE2) expression level. Using RNA-seq analysis on the lungs of smokers, we identified that the expression of inflammatory signaling genes was correlated with ACE2 expression. Notably, with increasing duration of smoking cessation among ex-smokers, not only ACE2 expression level but also the expression levels of inflammatory signaling genes decreased. These results indicated that smoking enhances the expression levels of ACE2 and inflammatory signaling genes. Our data suggest that the efficiency of SARS-CoV-2 infection is enhanced by smoking-mediated upregulation of ACE2 expression level.

    DOI: 10.1111/1348-0421.13034

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  • Characterization of various remdesivir-resistant mutations of SARS-CoV-2 by mathematical modeling and molecular dynamics simulation 査読

    Shiho Torii, Kwang Su Kim, Jun Koseki, Rigel Suzuki, Shoya Iwanami, Yasuhisa Fujita, Yong Dam Jeong, Yoshiharu Matsuura, Teppei Shimamura, Shingo Iwami, Takasuke Fukuhara

    2022年2月

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    担当区分:筆頭著者   掲載種別:研究論文(学術雑誌)   出版者・発行元:Cold Spring Harbor Laboratory  

    DOI: 10.1101/2022.02.22.481436

  • Attenuated fusogenicity and pathogenicity of SARS-CoV-2 Omicron variant. 査読 国際誌

    Rigel Suzuki, Daichi Yamasoba, Izumi Kimura, Lei Wang, Mai Kishimoto, Jumpei Ito, Yuhei Morioka, Naganori Nao, Hesham Nasser, Keiya Uriu, Yusuke Kosugi, Masumi Tsuda, Yasuko Orba, Michihito Sasaki, Ryo Shimizu, Ryoko Kawabata, Kumiko Yoshimatsu, Hiroyuki Asakura, Mami Nagashima, Kenji Sadamasu, Kazuhisa Yoshimura, Hirofumi Sawa, Terumasa Ikeda, Takashi Irie, Keita Matsuno, Shinya Tanaka, Takasuke Fukuhara, Kei Sato

    Nature   603 ( 7902 )   700 - 705   2022年2月

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)  

    The emergence of a new severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variant, Omicron, is an urgent global health concern (ref.1). Our statistical modelling suggests that Omicron has spread more rapidly than the Delta variant in several countries including South Africa. Cell culture experiments show that Omicron is less fusogenic than Delta and an ancestral SARS-CoV-2 strain. Although the spike (S) protein of Delta is efficiently cleaved into two subunits, which facilitates cell-cell fusion2,3, Omicron S is less efficiently cleaved compared to Delta S and ancestral SARS-CoV-2 S. Furthermore, in a hamster model, Omicron shows decreased lung infectivity and is less pathogenic compared to Delta and ancestral SARS-CoV-2.

    DOI: 10.1038/s41586-022-04462-1

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  • A non-spike nucleocapsid R204P mutation in SARS-CoV-2 Omicron XEC enhances inflammation and pathogenicity 査読

    Tsujino, S; Tsuda, M; Deguchi, S; Ito, J; Taha, TY; Nasser, H; Wang, L; Rosecrans, J; Suzuki, R; Suzuki, S; Yoshimatsu, K; Ott, M; Ikeda, T; Sato, K; Takayama, K; Tanaka, S; Tamura, T; Fukuhara, T

    NATURE COMMUNICATIONS   17 ( 1 )   735   2025年12月   eISSN:2041-1723

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    記述言語:英語   出版者・発行元:Nature Communications  

    The global circulation of SARS-CoV-2 in human populations has driven the emergence of Omicron subvariants, which have become highly diversified through recombination. In late 2024, SARS-CoV-2 Omicron XEC variant emerged from the recombination of two JN.1 progeny, KS.1.1 and KP.3.3, and became predominant worldwide. Here, we investigate virological features of the XEC variant. Epidemic dynamics modeling suggests that spike substitutions in XEC mainly contribute to its increased viral fitness. Additionally, four licensed antivirals are effective against XEC. Although the fusogenicity of XEC spike is comparable to that of the JN.1 spike, the intrinsic pathogenicity of XEC in male hamsters is significantly higher than that of JN.1. Notably, we find that the nucleocapsid R204P mutation of XEC enhances inflammation through NF-κB activation. Recent studies suggest that the evolutionary potential of spike protein is reaching its limit. Indeed, our findings highlight the critical role of non-spike mutations in the future evolution of SARS-CoV-2.

    DOI: 10.1038/s41467-025-67455-4

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  • First Versatile Reverse Genetics System for DNA Viruses Using Circular Polymerase Extension Reaction(タイトル和訳中) 査読

    Yamamoto Hirotaka, Tamura Tomokazu, Suzuki Rigel, Suzuki Saori, Fukuhara Takasuke

    Microbiology and Immunology   69 ( 12 )   619 - 622   2025年12月   ISSN:0385-5600

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    記述言語:英語   出版者・発行元:John Wiley & Sons Australia, Ltd  

  • First Versatile Reverse Genetics System for DNA Viruses Using Circular Polymerase Extension Reaction 査読 国際誌

    Yamamoto, H; Tamura, T; Suzuki, R; Suzuki, S; Fukuhara, T

    MICROBIOLOGY AND IMMUNOLOGY   69 ( 12 )   619 - 622   2025年12月   ISSN:0385-5600 eISSN:1348-0421

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Microbiology and Immunology  

    Reverse genetics enables the generation of recombinant viruses; however, conventional approaches using full-length cDNA cloned into bacterial artificial chromosomes or plasmids are time-consuming and technically challenging. While the circular polymerase extension reaction (CPER) has been applied to RNA viruses, it has not been used for DNA viruses. Here, we successfully applied CPER to generate infectious recombinant adenoviruses (AdVs) of two serotypes. The resulting viruses replicated comparably to parental strains, and replication was confirmed by immunostaining. These findings demonstrate that CPER is a rapid and efficient platform for reverse genetics of DNA viruses and may accelerate AdV research and therapeutic development.

    DOI: 10.1111/1348-0421.70016

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  • Noncompetitive Fluorescence Polarization Aptamer Assay for Detecting SARS-CoV-2 Variants 査読

    Yu-Ting, C; Suzuki, R; Fujioka, Y; Ishida, A; Imai, A; Fukuyama, M; Kasuya, M; Ohba, Y; Fukuhara, T; Shigemura, K; Hibara, A; Maeki, M; Tokeshi, M

    ACS OMEGA   10 ( 43 )   51228 - 51235   2025年11月   ISSN:2470-1343

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:ACS Omega  

    Although the SARS-CoV-2 pandemic has subsided with the widespread rollout of vaccines, emerging variants continue to pose significant public health challenges. While current diagnostic technologies can sensitively detect specific variants, there is an increasing need for broad-spectrum detection methods that are less affected by viral mutations. In particular, the development of diagnostic techniques that are not only broadly applicable but also rapid and cost-effective is highly desirable for large-scale screening and long-term surveillance. In this study, the applicability of a noncompetitive fluorescence polarization aptamer assay (NC-FPAA) was evaluated for detecting SARS-CoV-2, including both the wild-type strain and various variants. Two fluorescently labeled aptamers, a 77-mer (K1) and a 51-mer (M40), previously reported to have broad affinity for spike proteins of different SARS-CoV-2 variants, were used as probes. Detection experiments were conducted using eight SARS-CoV-2 variants, and specificity was further assessed using influenza viruses. The results demonstrate that NC-FPAA has the potential to serve as a diagnostic tool for the rapid, simple, and low-cost detection of multiple SARS-CoV-2 variants, thereby supporting broad and effective viral surveillance.

    DOI: 10.1021/acsomega.5c06304

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  • Evolution of BA.2.86 to JN.1 reveals that functional changes in non-structural viral proteins are required for fitness of SARS-CoV-2 査読

    Tsujino, S; Tsuda, M; Nao, N; Okumura, K; Wang, L; Oda, Y; Mimura, Y; Li, JS; Hashimoto, R; Matsumura, Y; Suzuki, R; Suzuki, S; Yoshimatsu, K; Nagao, M; Ito, J; Takayama, K; Sato, K; Matsuno, K; Tamura, T; Tanaka, S; Fukuhara, T

    JOURNAL OF VIROLOGY   99 ( 10 )   e0090825   2025年10月   ISSN:0022-538X eISSN:1098-5514

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    記述言語:英語   出版者・発行元:Journal of Virology  

    Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative agent of coronavirus disease 2019 (COVID-19), is still circulating among humans, leading to the continuous evolution. SARS-CoV-2 Omicron JN.1 evolved from a distinct SARS-CoV-2 lineage, BA.2.86, and spread rapidly worldwide. It is unclear why BA.2.86 did not become dominant and was quickly replaced by JN.1, which possesses one amino acid substitution in the spike protein (S:L455S) and two in the non-spike proteins NSP6 and ORF7b (NSP6:R252K and ORF7b:F19L) compared to BA.2.86. Here, we utilized recombinant viruses to elucidate the impact of these mutations on the virological characteristics of JN.1. We found that the mutation in the spike attenuated viral replication, while the non-spike mutations acted synergistically to enhance replication. This suggests that the mutations in the non-spike proteins compensate for the one in the spike, improving viral fitness, as the mutations in the spike contribute to further immune evasion. Our findings suggest that functional changes in both the spike and non-spike proteins are necessary for the evolution of SARS-CoV-2, enabling evasion of adaptive immunity within the human population while sustaining replication.

    DOI: 10.1128/jvi.00908-25

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  • Characterization of remdesivir resistance mutations in COVID-19 patients with various immunosuppressive diseases 査読

    Ichikawa, T; Tamura, T; Nao, N; Suzuki, H; Maruyama, S; Wada, D; Tsujino, S; Yoshinaga, N; Asagoe, K; Takahata, M; Ishio, T; Ibata, M; Yoko, T; Kakinoki, Y; Okubo, K; Suzuki, R; Suzuki, S; Nakamori, Y; Teshima, T; Fukuhara, T

    ANTIVIRAL RESEARCH   242   106264 - 106264   2025年10月   ISSN:0166-3542 eISSN:1872-9096

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Antiviral Research  

    Immunocompromised patients (ICPs), such as those who receive certain immunosuppressive therapies, occasionally experience prolonged viral infections even after antiviral treatment. In some cases, antiviral-resistant viruses may eventually emerge. Remdesivir (RDV) is an adenosine nucleoside analog that inhibits the activity of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) RNA polymerase, which is composed of a catalytic subunit known as nsp12. Previous studies have reported that amino acid mutations around loci 790–810 in nsp12 are responsible for RDV resistance. However, the host immune status that promotes the emergence of resistant viruses and their virological features remain unclear. We therefore collected clinical samples from 15 coronavirus disease 2019 (COVID-19) patients with various immunosuppressive conditions who received RDV. Variant analysis identified a total of seven nsp12 mutations—V792I, M794I, E796D, E796K, C799F, C799Y, and T803I—in 80 % (12/15) of the participants, with M794I and V792I the most prevalent. The identified mutations were more frequently observed in severely ICPs (including patients with hematological malignancies or kidney transplantation) compared to non-severely ICPs (including patients with solid cancers or autoimmune diseases). In vitro analysis using recombinant viruses carrying each identified mutation demonstrated that all mutant viruses were less efficient in growth compared to wildtype but with a 1.8-fold (T803I) to 3.6-fold (V792I) increase in the half maximal effective concentration (EC<inf>50</inf>) of RDV. The present study highlights the importance of monitoring resistance mutations to anti–SARS-CoV-2 drugs in severely ICPs.

    DOI: 10.1016/j.antiviral.2025.106264

    Web of Science

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    PubMed

  • Enhanced SARS-CoV-2 BA.2.86 Neutralization After BA.5 Infection in Vaccinated Kidney Transplant Recipients. 査読 国際誌

    Keita Kawashiro, Kiyohiko Hotta, Rigel Suzuki, Naoya Iwahara, Takayuki Hirose, Shuhei Tsujino, Takasuke Fukuhara, Nobuo Shinohara

    Transplantation proceedings   2025年6月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    BACKGROUND: Vaccination with mRNA vaccines has significantly reduced the SARS-CoV-2 mortality rate in the general population. However, the effectiveness of mRNA vaccines in kidney transplant (KTx) recipients is unclear. METHODS: In this cohort, we compared the disease severity and seroconversion rate after SARS-CoV-2 infection in 30 vaccinated and 8 unvaccinated KTx recipients. KTx recipients have infected between February 2022 and September 2023 during the Omicron variant phases. We measured anti-SARS-CoV-2 spike protein IgG antibodies (cutoff value was 1.0 AU/mL). Furthermore, we investigated anti-SARS-CoV-2 spike protein IgG antibodies and the neutralizing antibody titer against BA.5 and BA.2.86 in 10 vaccinated KTx recipients before and after BA.5 infection. RESULT: The incidence of moderate disease was significantly higher in the unvaccinated group (P = .004). The median antibody titers after SARS-CoV-2 infection in vaccinated and unvaccinated KTx recipients were 244.5 (IQR: 43.5-757.8) and <1 (IQR: <1-<1) AU/mL, respectively (P < .0001). Surprisingly, none of the 5 patients with moderate disease developed detectable antibodies after infection. The antibody titers and neutralizing antibody titer against BA.5 and BA.2.86 variants in vaccinated KTx recipients increased significantly after BA.5 infection (S-IgG: P = .004, BA.5: P = .002, BA.2.86: P = .016). CONCLUSIONS: Although vaccinated KTx recipients achieved IgG antibody and neutralizing antibody boost after SARS-CoV-2 infection, unvaccinated KTx recipients did not experience an increase in antibody titers and experienced more severe infections. Furthermore, KTx recipients acquired the neutralizing activity against Omicron BA.2.86 after Omicron BA.5 infection. Thus, vaccination should be recommended for KTx recipients.

    DOI: 10.1016/j.transproceed.2025.05.021

    PubMed

  • A non-spike nucleocapsid R204P mutation in SARS-CoV-2 Omicron XEC enhances inflammation and pathogenicity.

    Tsujino S, Tsuda M, Ito J, Deguchi S, Taha TY, Nasser H, Wang L, Rosecrans J, Suzuki R, Suzuki S, Yoshimatsu K, Ott M, Genotype to Phenotype Japan (G2P-Japan) Consortium, Ikeda T, Takayama K, Sato K, Tanaka S, Tamura T, Fukuhara T

    bioRxiv : the preprint server for biology   2025年5月

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    記述言語:英語   出版者・発行元:Cold Spring Harbor Laboratory  

    The global circulation of SARS-CoV-2 in human populations has driven the emergence of Omicron subvariants, which have become highly diversified through recombination. In late 2024, SARS-CoV-2 Omicron XEC variant emerged from the recombination of two JN.1 progeny, KS.1.1 and KP.3.3, and became predominant worldwide. Here, we investigated virological features of the XEC variant. Epidemic dynamics modeling suggested that spike substitutions in XEC mainly contribute to its increased viral fitness. Additionally, four licensed antivirals were effective against XEC. Although the fusogenicity of XEC spike is comparable to that of the JN.1 spike, the intrinsic pathogenicity of XEC in hamsters was significantly higher than that of JN.1. Notably, we found that the nucleocapsid R204P mutation of XEC enhanced inflammation through NF-κB activation. Recent studies suggest that the evolutionary potential of spike protein is reaching its limit. Indeed, our findings highlight the critical role of non-spike mutations in the future evolution of SARS-CoV-2.

    DOI: 10.1101/2025.05.28.656516

    PubMed

  • Evolution of BA.2.86 to JN.1 reveals functional changes in non-structural viral proteins are required for fitness of SARS-CoV-2 査読

    Shuhei Tsujino, Masumi Tsuda, Naganori Nao, Kaho Okumura, Lei Wang, Yoshitaka Oda, Yume Mimura, Jingshu Li, Rina Hashimoto, Yasufumi Matsumura, Rigel Suzuki, Saori Suzuki, Kumiko Yoshimatsu, Miki Nagao, Jumpei Ito, Kazuo Takayama, Kei Sato, Keita Matsuno, Tomokazu Tamura, Shinya Tanaka, Takasuke Fukuhara

    2025年2月

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    出版者・発行元:Cold Spring Harbor Laboratory  

    ABSTRACT

    Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the causative agent of the coronavirus disease 2019 (COVID-19), is still circulating among humans, leading to the continuous evolution. SARS-CoV-2 Omicron JN.1 evolved from a distinct SARS-CoV-2 lineage, BA.2.86, spread rapidly worldwide. It is unclear why BA.2.86 did not become dominant and was quickly replaced by JN.1, which possesses one amino acid substitution in the spike protein (S:L455S) and two in the non-spike proteins NSP6 and ORF7b (NSP6:R252K and ORF7b:F19L) compared to BA.2.86. Here, we utilized recombinant viruses to elucidate the impact of these mutations on the virological characteristics of JN.1. We found that the mutation in the spike attenuated viral replication, but the non-spike mutations enhanced replication, suggesting the mutations in the non-spike proteins compensate for the one in the spike to improve viral fitness, as the mutations in the spike contribute to further immune evasion. Our findings suggest that functional changes in both the spike and non-spike proteins are necessary in the evolution of SARS-CoV-2 to enable evasion of adaptive immunity within the human population while sustaining replication.

    IMPORTANCE

    Because the spike protein is strongly associated with certain virological properties of SARS-CoV-2, such as immune evasion and infectivity, most previous studies on SARS-CoV-2 variants have focused on spike protein mutations. However, the non-spike proteins also contribute to infectivity, as observed throughout the evolution of Omicron subvariants. In this study, we demonstrate a “trade-off” strategy in SARS-CoV-2 Omicron JN.1 in which the reduced infectivity caused by spike mutation is compensated by non-spike mutations. Our results provide insight into the evolutionary scenario of the emerging virus in the human population.

    DOI: 10.1101/2025.02.17.638623

  • TanGIBLE: A selective probe for evaluating hydrophobicity-exposed defective proteins in live cells. 査読

    Iwasa, Y., Miyata, S., Tomita, T., Yokota, N., Miyauchi, M., Mori, R., Matsushita, S., Suzuki, R., Saeki, Y., Kawahara, H.

    J. Cell Biol.   in press   2024年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1083/jcb.202109010

  • Structural basis for receptor-binding domain mobility of the spike in SARS-CoV-2 BA.2.86 and JN.1 査読

    Yajima H., Anraku Y., Kaku Y., Kimura K.T., Plianchaisuk A., Okumura K., Nakada-Nakura Y., Atarashi Y., Hemmi T., Kuroda D., Takahashi Y., Kita S., Sasaki J., Sumita H., Konar A., Padilla-Blanco M., Andrikopoulos P., Zahradnik J., Nishiuchi T., Matsubara N., Kawano M., Kosaka A., Saito A., Toyoda M., Motozono C., Ueno T., Takahashi O., Leong S., Mugita Y., Jonathan M., Begum M.S.T.M., Shimizu R., Nasser H., Ikeda T., Sasaki-Tabata K., Kawabata R., Irie T., Nakajima Y., Suzuki T., Yasuhara N., Sakamoto A., Futatsusako H., Nakata Y., Watanabe Y., Deguchi S., Hashimoto R., Takayama K., Nakagawa S., Yoshida I., Asakura H., Nagashima M., Sadamas K., Yoshimura K., Osujo R., Fukuda T., Ogawa E., Tanaka S., Ohsumi N., Strange A.P., Iida K., Yasuda K., Chiba M., Suganami M., Horinaka K., Yo M.S., Li W., Pan L., Chen L., Jarel J.E., Fujita S., Kosugi Y., Nishumura L., Kawakubo S., Yoshimura R., Uriu K., Lytras S., Saikruang W., Usui K., Hinay A.A., Guo Z., Misawa N., Ito H., Tsujino S., Suzuki S., Suzuki R., Tamura T., Fukuhara T., Iida M., Mohri H., Shishido K., Ferdous Z., Oda Y., Wang L., Tsuda M., Tanaka S., Ohari Y., Mimura Y., Kida I., Li J., Mizuma K.

    Nature Communications   15 ( 1 )   2024年10月   eISSN:2041-1723

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Nature Communications  

    Since 2019, SARS-CoV-2 has undergone mutations, resulting in pandemic and epidemic waves. The SARS-CoV-2 spike protein, crucial for cellular entry, binds to the ACE2 receptor exclusively when its receptor-binding domain (RBD) adopts the up-conformation. However, whether ACE2 also interacts with the RBD in the down-conformation to facilitate the conformational shift to RBD-up remains unclear. Herein, we present the structures of the BA.2.86 and the JN.1 spike proteins bound to ACE2. Notably, we successfully observed the ACE2-bound down-RBD, indicating an intermediate structure before the RBD-up conformation. The wider and mobile angle of RBDs in the up-state provides space for ACE2 to interact with the down-RBD, facilitating the transition to the RBD-up state. The K356T, but not N354-linked glycan, contributes to both of infectivity and neutralizing-antibody evasion in BA.2.86. These structural insights the spike-protein dynamics would help understand the mechanisms underlying SARS-CoV-2 infection and its neutralization.

    DOI: 10.1038/s41467-024-52808-2

    Scopus

    その他リンク: https://www.nature.com/articles/s41467-024-52808-2

  • Molecular and structural insights into SARS-CoV-2 evolution: from BA.2 to XBB subvariants 査読

    Yajima H., Nomai T., Okumura K., Maenaka K., Ito J., Hashiguchi T., Sato K., Matsuno K., Nao N., Sawa H., Mizuma K., Li J., Kida I., Mimura Y., Ohari Y., Tanaka S., Tsuda M., Wang L., Oda Y., Ferdous Z., Shishido K., Mohri H., Iida M., Fukuhara T., Tamura T., Suzuki R., Suzuki S., Tsujino S., Ito H., Kaku Y., Misawa N., Plianchaisuk A., Guo Z., Hinay A.A., Usui K., Saikruang W., Lytras S., Uriu K., Yoshimura R., Kawakubo S., Nishumura L., Kosugi Y., Fujita S., Tolentino J.E.M., Chen L., Pan L., Li W., Yo M.S., Horinaka K., Suganami M., Chiba M., Yasuda K., Iida K., Strange A.P., Ohsumi N., Tanaka S., Ogawa E., Fukuda T., Osujo R., Yoshimura K., Sadamas K., Nagashima M., Asakura H., Yoshida I., Nakagawa S., Takayama K., Hashimoto R., Deguchi S., Watanabe Y., Nakata Y., Futatsusako H., Sakamoto A., Yasuhara N., Suzuki T., Kimura K., Sasaki J., Nakajima Y., Irie T., Kawabata R., Sasaki-Tabata K., Ikeda T., Nasser H., Shimizu R., Begum M.M., Jonathan M., Mugita Y., Leong S., Takahashi O., Ueno T., Motozono C., Toyoda M., Saito A., Kosaka A., Kawano M., Matsubara N., Nishiuchi T., Zahradnik J., Andrikopoulos P., Padilla-Blanco M., Konar A.

    Mbio   15 ( 10 )   2024年10月   ISSN:21612129

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    出版者・発行元:Mbio  

    Due to the incessant emergence of various SARS-CoV-2 variants with enhanced fitness in the human population, controlling the COVID-19 pandemic has been challenging. Understanding how the virus enhances its fitness during a pandemic could offer valuable insights for more effective control of viral epidemics. In this manuscript, we review the evolution of SARS-CoV-2 from early 2022 to the end of 2023—from Omicron BA.2 to XBB descendants. Focusing on viral evolution during this period, we provide concrete examples that SARS-CoV-2 has increased its fitness by enhancing several functions of the spike (S) protein, including its binding affinity to the ACE2 receptor and its ability to evade humoral immunity. Furthermore, we explore how specific mutations modify these functions of the S protein through structural alterations. This review provides evolutionary, molecular, and structural insights into how SARS-CoV-2 has increased its fitness and repeatedly caused epidemic surges during the pandemic.

    DOI: 10.1128/mbio.03220-23

    Scopus

  • Virological characteristics of the SARS-CoV-2 Omicron EG.5.1 variant 査読

    Tsujino, S; Deguchi, S; Nomai, T; Padilla-Blanco, M; Plianchaisuk, A; Wang, L; Begum, MSTM; Uriu, K; Mizuma, K; Nao, N; Kojima, I; Tsubo, T; Li, JS; Matsumura, Y; Nagao, M; Oda, Y; Tsuda, M; Anraku, Y; Kita, S; Yajima, H; Sasaki-Tabata, K; Guo, ZY; Hinay, AA; Yoshimatsu, K; Yamamoto, Y; Nagamoto, T; Asakura, H; Nagashima, M; Sadamasu, K; Yoshimura, K; Nasser, H; Jonathan, M; Putri, O; Kim, Y; Chen, L; Suzuki, R; Tamura, T; Maenaka, K; Irie, T; Matsuno, K; Tanaka, S; Ito, J; Ikeda, T; Takayama, K; Zahradnik, J; Hashiguchi, T; Fukuhara, T; Sato, K

    MICROBIOLOGY AND IMMUNOLOGY   68 ( 9 )   305 - 330   2024年9月   ISSN:0385-5600 eISSN:1348-0421

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    記述言語:英語   出版者・発行元:Microbiology and Immunology  

    In middle to late 2023, a sublineage of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) Omicron XBB, EG.5.1 (a progeny of XBB.1.9.2), is spreading rapidly around the world. We performed multiscale investigations, including phylogenetic analysis, epidemic dynamics modeling, infection experiments using pseudoviruses, clinical isolates, and recombinant viruses in cell cultures and experimental animals, and the use of human sera and antiviral compounds, to reveal the virological features of the newly emerging EG.5.1 variant. Our phylogenetic analysis and epidemic dynamics modeling suggested that two hallmark substitutions of EG.5.1, S:F456L and ORF9b:I5T are critical to its increased viral fitness. Experimental investigations on the growth kinetics, sensitivity to clinically available antivirals, fusogenicity, and pathogenicity of EG.5.1 suggested that the virological features of EG.5.1 are comparable to those of XBB.1.5. However, cryo-electron microscopy revealed structural differences between the spike proteins of EG.5.1 and XBB.1.5. We further assessed the impact of ORF9b:I5T on viral features, but it was almost negligible in our experimental setup. Our multiscale investigations provide knowledge for understanding the evolutionary traits of newly emerging pathogenic viruses, including EG.5.1, in the human population.

    DOI: 10.1111/1348-0421.13165

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    PubMed

  • SARS-CoV-2オミクロンEG.5.1変異株のウイルス学的特徴(Virological characteristics of the SARS-CoV-2 Omicron EG.5.1 variant) 査読

    Tsujino Shuhei, Deguchi Sayaka, Nomai Tomo, Padilla-Blanco Miguel, Plianchaisuk Arnon, Wang Lei, Begum MST Monira, Uriu Keiya, Mizuma Keita, Nao Naganori, Kojima Isshu, Tsubo Tomoya, Li Jingshu, Matsumura Yasufumi, Nagao Miki, Oda Yoshitaka, Tsuda Masumi, Anraku Yuki, Kita Shunsuke, Yajima Hisano, Sasaki-Tabata Kaori, Guo Ziyi, Hinay Alfredo A.Jr., Yoshimatsu Kumiko, Yamamoto Yuki, Nagamoto Tetsuharu, Asakura Hiroyuki, Nagashima Mami, Sadamasu Kenji, Yoshimura Kazuhisa, Nasser Hesham, Jonathan Michael, Putri Olivia, Kim Yoonjin, Chen Luo, Suzuki Rigel, Tamura Tomokazu, Maenaka Katsumi, Irie Takashi, Matsuno Keita, Tanaka Shinya, Ito Jumpei, Ikeda Terumasa, Takayama Kazuo, Zahradnik Jiri, Hashiguchi Takao, Fukuhara Takasuke, Sato Kei

    Microbiology and Immunology   68 ( 9 )   305 - 330   2024年9月   ISSN:0385-5600

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    記述言語:英語   出版者・発行元:John Wiley & Sons Australia, Ltd  

    Pseudovirusを用いて検討した。系統学的分析にて、EG.5.1系統におけるスパイク(S)タンパク質にF456L、非Sタンパク質にORF9b:I5T変異を認め、ウイルス適応性が上昇していた。EG.5.1はXBB.1.5と似た特徴を有していたが、Sタンパク質の構造は異なっていた。ORF9b:I5Tについて、さらに検討したところ、その影響はほとんどみられなかった。EG.5.1スパイクタンパク質の受容体結合ドメインにおけるアンジオテンシン変換酵素2結合親和性はXBB.1.5より弱かった。

  • Generation of recombinant viruses directly from clinical specimens of COVID-19 patients. 査読 国際誌

    Hirotaka Yamamoto, Tomokazu Tamura, Takaya Ichikawa, Yudai Taguchi, Kento Mori, Satoshi Oguri, Rigel Suzuki, Saori Suzuki, Takanori Teshima, Takasuke Fukuhara

    Journal of clinical microbiology   62 ( 7 )   e0004224   2024年7月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    UNLABELLED: Rapid characterization of the causative agent(s) during a disease outbreak can aid in the implementation of effective control measures. However, isolation of the agent(s) from crude clinical samples can be challenging and time-consuming, hindering the establishment of countermeasures. In the present study, we used saliva specimens collected for the diagnosis of SARS-CoV-2-a good example of a practical target-and attempted to characterize the virus within the specimens without virus isolation. Thirty-four saliva samples from coronavirus disease 2019 patients were used to extract RNA and synthesize DNA amplicons by PCR. New primer sets were designed to generate DNA amplicons of the full-length spike (S) gene for subsequent use in a circular polymerase extension reaction (CPER), a simple method for deriving recombinant viral genomes. According to the S sequence, four clinical specimens were classified as BA. 1, BA.2, BA.5, and XBB.1 and were used for the de novo generation of recombinant viruses carrying the entire S gene. Additionally, chimeric viruses carrying the gene encoding GFP were generated to evaluate viral propagation using a plate reader. We successfully used the RNA purified directly from clinical saliva samples to generate chimeric viruses carrying the entire S gene by our updated CPER method. The chimeric viruses exhibited robust replication in cell cultures with similar properties. Using the recombinant GFP viruses, we also successfully characterized the efficacy of the licensed antiviral AZD7442. Our proof-of-concept demonstrates the novel utility of CPER to allow rapid characterization of viruses from clinical specimens. IMPORTANCE: Characterization of the causative agent(s) for infectious diseases helps in implementing effective control measurements, especially in outbreaks. However, the isolation of the agent(s) from clinical specimens is often challenging and time-consuming. In this study, saliva samples from coronavirus disease 2019 patients were directly subjected to purifying viral RNA, synthesizing DNA amplicons for sequencing, and generating recombinant viruses. Utilizing an updated circular polymerase extension reaction method, we successfully generated chimeric SARS-CoV-2 viruses with sufficient in vitro replication capacity and antigenicity. Thus, the recombinant viruses generated in this study were applicable for evaluating the antivirals. Collectively, our developed method facilitates rapid characterization of specimens circulating in hosts, aiding in the establishment of control measurements. Additionally, this approach offers an advanced strategy for controlling other (re-)emerging viral infectious diseases.

    DOI: 10.1128/jcm.00042-24

    PubMed

  • Involvement of SARS-CoV-2 accessory proteins in immunopathogenesis. 査読 国際誌

    Hayato Ito, Tomokazu Tamura, Lei Wang, Kento Mori, Masumi Tsuda, Rigel Suzuki, Saori Suzuki, Kumiko Yoshimatsu, Shinya Tanaka, Takasuke Fukuhara

    Microbiology and immunology   68 ( 7 )   237 - 247   2024年7月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is the largest single-stranded RNA virus known to date. Its genome contains multiple accessory protein genes that act against host immune responses but are not required for progeny virus production. The functions of the accessory proteins in the viral life cycle have been examined, but their involvement in viral pathogenicity remains unclear. Here, we investigated the roles of the accessory proteins in viral immunopathogenicity. To this end, recombinant SARS-CoV-2 possessing nonsense mutations in the seven accessory protein open reading frames (ORFs) (ORF3a, ORF3b, ORF6, ORF7a, ORF8, ORF9b, and ORF10) was de novo generated using an early pandemic SARS-CoV-2 strain as a backbone. We confirmed that the resultant virus (termed ORF3-10 KO) did not express accessory proteins in infected cells and retained the desired mutations in the viral genome. In cell culture, the ORF3-10 KO virus exhibited similar virus growth kinetics as the parental virus. In hamsters, ORF3-10 KO virus infection resulted in mild weight loss and reduced viral replication in the oral cavity and lung tissue. ORF3-10 KO virus infection led to mild inflammation, indicating that an inability to evade innate immune sensing because of a lack of accessory proteins impairs virus growth in vivo and results in quick elimination from the body. Overall, we showed that SARS-CoV-2 accessory proteins are involved in immunopathogenicity.

    DOI: 10.1111/1348-0421.13157

    PubMed

  • Virological characteristics of a SARS-CoV-2-related bat coronavirus, BANAL-20-236 査読

    Shigeru Fujita, Arnon Plianchaisuk, Sayaka Deguchi, Hayato Ito, Naganori Nao, Lei Wang, Hesham Nasser, Tomokazu Tamura, Izumi Kimura, Yukie Kashima, Rigel Suzuki, Saori Suzuki, Izumi Kida, Masumi Tsuda, Yoshitaka Oda, Rina Hashimoto, Yukio Watanabe, Keiya Uriu, Daichi Yamasoba, Ziyi Guo, Alfredo A. Hinay, Yusuke Kosugi, Luo Chen, Lin Pan, Yu Kaku, Hin Chu, Flora Donati, Sarah Temmam, Marc Eloit, Yuki Yamamoto, Tetsuharu Nagamoto, Hiroyuki Asakura, Mami Nagashima, Kenji Sadamasu, Kazuhisa Yoshimura, Yutaka Suzuki, Hirofumi Sawa, Keita Mizuma, Jingshu Li, Yume Mimura, Yuma Ohari, Tomoya Tsubo, Zannatul Ferdous, Kenji Shishido, Hiromi Mohri, Miki Iida, Shuhei Tsujino, Naoko Misawa, Kaoru Usui, Wilaiporn Saikruang, Spyridon Lytras, Shusuke Kawakubo, Luca Nishumura, Jarel Elgin Mendoza Tolentino, Wenye Li, Maximilian Stanley Yo, Kio Horinaka, Mai Suganami, Mika Chiba, Ryo Yoshimura, Kyoko Yasuda, Keiko Iida, Adam Patrick Strange, Naomi Ohsumi, Shiho Tanaka, Eiko Ogawa, Kaho Okumura, Tsuki Fukuda, Rina Osujo, Isao Yoshida, So Nakagawa, Akifumi Takaori-Kondo, Kotaro Shirakawa, Kayoko Nagata, Ryosuke Nomura, Yoshihito Horisawa, Yusuke Tashiro, Yugo Kawai, Yoshitaka Nakata, Hiroki Futatsusako, Ayaka Sakamoto, Naoko Yasuhara, Takao Hashiguchi, Tateki Suzuki, Kanako Kimura, Jiei Sasaki, Yukari Nakajima, Hisano Yajima, Takashi Irie, Ryoko Kawabata, Kaori Sasaki-Tabata, Ryo Shimizu, M.S.T. Monira Begum, Michael Jonathan, Yuka Mugita, Sharee Leong, Otowa Takahashi, Kimiko Ichihara, Takamasa Ueno, Chihiro Motozono, Mako Toyoda, Akatsuki Saito, Anon Kosaka, Miki Kawano, Natsumi Matsubara, Tomoko Nishiuchi, Jiri Zahradnik, Prokopios Andrikopoulos, Miguel Padilla-Blanco, Aditi Konar, Jumpei Ito, Terumasa Ikeda, Shinya Tanaka, Keita Matsuno, Takasuke Fukuhara, Kazuo Takayama, Kei Sato

    eBioMedicine   104   105181 - 105181   2024年6月   ISSN:2352-3964

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.ebiom.2024.105181

  • A rapid and versatile reverse genetics approach for generating recombinant positive-strand RNA viruses that use IRES-mediated translation. 査読 国際誌

    Tomokazu Tamura, Hirotaka Yamamoto, Saho Ogino, Yuhei Morioka, Shuhei Tsujino, Rigel Suzuki, Takahiro Hiono, Saori Suzuki, Norikazu Isoda, Yoshihiro Sakoda, Takasuke Fukuhara

    Journal of virology   e0163823   2024年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Reverse genetics systems have played a central role in developing recombinant viruses for a wide spectrum of virus research. The circular polymerase extension reaction (CPER) method has been applied to studying positive-strand RNA viruses, allowing researchers to bypass molecular cloning of viral cDNA clones and thus leading to the rapid generation of recombinant viruses. However, thus far, the CPER protocol has only been established using cap-dependent RNA viruses. Here, we demonstrate that a modified version of the CPER method can be successfully applied to positive-strand RNA viruses that use cap-independent, internal ribosomal entry site (IRES)-mediated translation. As a proof-of-concept, we employed mammalian viruses with different types (classes I, II, and III) of IRES to optimize the CPER method. Using the hepatitis C virus (HCV, class III), we found that inclusion in the CPER assembly of an RNA polymerase I promoter and terminator, instead of those from polymerase II, allowed greater viral production. This approach was also successful in generating recombinant bovine viral diarrhea virus (class III) following transfection of MDBK/293T co-cultures to overcome low transfection efficiency. In addition, we successfully generated the recombinant viruses from clinical specimens. Our modified CPER could be used for producing hepatitis A virus (HAV, type I) as well as de novo generation of encephalomyocarditis virus (type II). Finally, we generated recombinant HCV and HAV reporter viruses that exhibited replication comparable to that of the wild-type parental viruses. The recombinant HAV reporter virus helped evaluate antivirals. Taking the findings together, this study offers methodological advances in virology.IMPORTANCEThe lack of versatility of reverse genetics systems remains a bottleneck in viral research. Especially when (re-)emerging viruses reach pandemic levels, rapid characterization and establishment of effective countermeasures using recombinant viruses are beneficial in disease control. Indeed, numerous studies have attempted to establish and improve the methods. The circular polymerase extension reaction (CPER) method has overcome major obstacles in generating recombinant viruses. However, this method has not yet been examined for positive-strand RNA viruses that use cap-independent, internal ribosome entry site-mediated translation. Here, we engineered a suitable gene cassette to expand the CPER method for all positive-strand RNA viruses. Furthermore, we overcame the difficulty of generating recombinant viruses because of low transfection efficiency. Using this modified method, we also successfully generated reporter viruses and recombinant viruses from a field sample without virus isolation. Taking these findings together, our adapted methodology is an innovative technology that could help advance virologic research.

    DOI: 10.1128/jvi.01638-23

    PubMed

  • Virological characteristics of the SARS-CoV-2 BA.2.86 variant. 査読 国際誌

    Tomokazu Tamura, Keita Mizuma, Hesham Nasser, Sayaka Deguchi, Miguel Padilla-Blanco, Yoshitaka Oda, Keiya Uriu, Jarel E M Tolentino, Shuhei Tsujino, Rigel Suzuki, Isshu Kojima, Naganori Nao, Ryo Shimizu, Lei Wang, Masumi Tsuda, Michael Jonathan, Yusuke Kosugi, Ziyi Guo, Alfredo A Hinay Jr, Olivia Putri, Yoonjin Kim, Yuri L Tanaka, Hiroyuki Asakura, Mami Nagashima, Kenji Sadamasu, Kazuhisa Yoshimura, Akatsuki Saito, Jumpei Ito, Takashi Irie, Shinya Tanaka, Jiri Zahradnik, Terumasa Ikeda, Kazuo Takayama, Keita Matsuno, Takasuke Fukuhara, Kei Sato

    Cell host & microbe   32 ( 2 )   170 - 180   2024年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    In late 2023, several SARS-CoV-2 XBB descendants, notably EG.5.1, were predominant worldwide. However, a distinct SARS-CoV-2 lineage, the BA.2.86 variant, also emerged. BA.2.86 is phylogenetically distinct from other Omicron sublineages, accumulating over 30 amino acid mutations in its spike protein. Here, we examined the virological characteristics of the BA.2.86 variant. Our epidemic dynamics modeling suggested that the relative reproduction number of BA.2.86 is significantly higher than that of EG.5.1. Additionally, four clinically available antivirals were effective against BA.2.86. Although the fusogenicity of BA.2.86 spike is similar to that of the parental BA.2 spike, the intrinsic pathogenicity of BA.2.86 in hamsters was significantly lower than that of BA.2. Since the growth kinetics of BA.2.86 are significantly lower than those of BA.2 both in vitro and in vivo, the attenuated pathogenicity of BA.2.86 is likely due to its decreased replication capacity. These findings uncover the features of BA.2.86, providing insights for control and treatment.

    DOI: 10.1016/j.chom.2024.01.001

    PubMed

  • Virological characteristics of the SARS-CoV-2 Omicron XBB.1.5 variant 国際誌

    田村 友和, 入江 崇, デグチ サヤカ, ヤジマ ヒサノ, 津田 真寿美, ミズマ ケイタ, 鈴木 紗織, ウリウ ケイヤ, シミズ リョウ, 鈴木 理滋, コンドウ タカシ, カミヤマ アキフミ, 吉松 組子, ハシモト リナ, テラカド キムラ カナコ, 喜多 俊介, ササキ ジエイ, 佐々木-田畑 香織, 前仲 勝実, 直 亨則, 王 磊, 小田 義崇, 澤 洋文, カワバタ リョウコ, ワタナベ ユキオ, サカモト アヤカ, ヤスハラ ナオコ, 鈴木 干城, ナカジマ ユカリ, シシド ケンジ, タカハシ オトワ, イチハラ キミコ, 郭 悠, ミサワ ナオコ, コスギ ユウスケ, フジタ シゲル, スギナミ マイ, チバ ミカ, ヨシムラ リョウ, ヤスダ キョウコ, イイダ ケイコ, オオスミ ナオミ, ニシウチ トモコ, タナカ シホ, ヤマソバ ダイチ, ヨシムラ カズヒサ, サダマツ ケンジ, ナガシマ マミ, アサクラ ヒロユキ, タカオリ-コンドウ アキフミ, ナガタ カヨコ, カワイ ユウゴ, 上野 貴将, 本園 千尋, 豊田 真子, 池田 輝政, 齊藤 暁, 松野 啓太, 伊東 潤平, 田中 伸哉, 佐藤 佳, 橋口 隆生, 高山 和雄, 福原 崇介

    NATURE COMMUNICATIONS   15 ( 1 )   1176 - 1176   2024年2月   eISSN:20411723

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer  

    Circulation of SARS-CoV-2 Omicron XBB has resulted in the emergence of XBB.1.5, a new Variant of Interest. Our phylogenetic analysis suggests that XBB.1.5 evolved from XBB.1 by acquiring the S486P spike (S) mutation, subsequent to the acquisition of a nonsense mutation in ORF8. Neutralization assays showed similar abilities of immune escape between XBB.1.5 and XBB.1. We determine the structural basis for the interaction between human ACE2 and the S protein of XBB.1.5, showing similar overall structures between the S proteins of XBB.1 and XBB.1.5. We provide the intrinsic pathogenicity of XBB.1 and XBB.1.5 in hamsters. Importantly, we find that the ORF8 nonsense mutation of XBB.1.5 resulted in impairment of MHC suppression. In vivo experiments using recombinant viruses reveal that the XBB.1.5 mutations are involved with reduced virulence of XBB.1.5. Together, our study identifies the two viral functions defined the difference between XBB.1 and XBB.1.5.

    DOI: 10.1038/s41467-024-45274-3

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    CiNii Research

  • High-precision rapid testing of omicron SARS-CoV-2 variants in clinical samples using AI-nanopore. 査読 国際誌

    Kaoru Murakami, Shimpei I Kubota, Kumiko Tanaka, Hiroki Tanaka, Keiichiroh Akabane, Rigel Suzuki, Yuta Shinohara, Hiroyasu Takei, Shigeru Hashimoto, Yuki Tanaka, Shintaro Hojyo, Osamu Sakamoto, Norihiko Naono, Takayui Takaai, Kazuki Sato, Yuichi Kojima, Toshiyuki Harada, Takeshi Hattori, Satoshi Fuke, Isao Yokota, Satoshi Konno, Takashi Washio, Takasuke Fukuhara, Takanori Teshima, Masateru Taniguchi, Masaaki Murakami

    Lab on a chip   23 ( 22 )   4909 - 4918   2023年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    A digital platform that can rapidly and accurately diagnose pathogenic viral variants, including SARS-CoV-2, will minimize pandemics, public anxiety, and economic losses. We recently reported an artificial intelligence (AI)-nanopore platform that enables testing for Wuhan SARS-CoV-2 with high sensitivity and specificity within five minutes. However, which parts of the virus are recognized by the platform are unknown. Similarly, whether the platform can detect SARS-CoV-2 variants or the presence of the virus in clinical samples needs further study. Here, we demonstrated the platform can distinguish SARS-CoV-2 variants. Further, it identified mutated Wuhan SARS-CoV-2 expressing spike proteins of the delta and omicron variants, indicating it discriminates spike proteins. Finally, we used the platform to identify omicron variants with a sensitivity and specificity of 100% and 94%, respectively, in saliva specimens from COVID-19 patients. Thus, our results demonstrate the AI-nanopore platform is an effective diagnostic tool for SARS-CoV-2 variants.

    DOI: 10.1039/d3lc00572k

    PubMed

  • Determination of the factors responsible for the tropism of SARS-CoV-2-related bat coronaviruses to <i>Rhinolophus</i> bat ACE2 査読

    Shigeru Fujita, Yusuke Kosugi, Izumi Kimura, Kenzo Tokunaga, Jumpei Ito, Kei Sato, Keita Matsuno, Naganori Nao, Hirofumi Sawa, Shinya Tanaka, Masumi Tsuda, Lei Wang, Yoshikata Oda, Zannatul Ferdous, Kenji Shishido, Takasuke Fukuhara, Tomokazu Tamura, Rigel Suzuki, Saori Suzuki, Hayato Ito, Yu Kaku, Naoko Misawa, Arnon Plianchaisuk, Ziyi Guo, Alfredo A. Hinay, Keiya Uriu, Jarel Elgin M. Tolentino, Luo Chen, Lin Pan, Mai Suganami, Mika Chiba, Ryo Yoshimura, Kyoko Yasuda, Keiko Iida, Naomi Ohsumi, Adam P. Strange, Shiho Tanaka, Kazuhisa Yoshimura, Kenji Sadamasu, Mami Nagashima, Hiroyuki Asakura, Isao Yoshida, So Nakagawa, Akifumi Takaori-Kondo, Kayoko Nagata, Ryosuke Nomura, Yoshihito Horisawa, Yusuke Tashiro, Yugo Kawai, Kazuo Takayama, Rina Hashimoto, Sayaka Deguchi, Yukio Watanabe, Ayaka Sakamoto, Naoko Yasuhara, Takao Hashiguchi, Tateki Suzuki, Kanako Kimura, Jiei Sasaki, Yukari Nakajima, Hisano Yajima, Takashi Irie, Ryoko Kawabata, Kaori Tabata, Terumasa Ikeda, Hesham Nasser, Ryo Shimizu, M. S. T. Monira Begum, Michael Jonathan, Yuka Mugita, Otowa Takahashi, Kimiko Ichihara, Chihiro Motozono, Takamasa Ueno, Mako Toyoda, Akatsuki Saito, Maya Shofa, Yuki Shibatani, Tomoko Nishiuchi, Kotaro Shirakawa

    Journal of Virology   97 ( 10 )   2023年10月   ISSN:0022-538X eISSN:1098-5514

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:American Society for Microbiology  

    ABSTRACT

    Differences in host angiotensin converting enzyme 2 (ACE2) genes may affect the host range of SARS-CoV-2-related coronaviruses (SC2r-CoVs) and further determine the tropism of host ACE2 for the infection receptor. However, the factor(s) responsible for determining the host tropism of SC2r-CoVs, which may in part be determined by the tropism of host ACE2 usage, remains unclear. Here, we use the pseudoviruses with the spike proteins of two Laotian SC2r-CoVs, BANAL-20-236 and BANAL-20-52, and the cells expressing ACE2 proteins of eight different Rhinolophus bat species to show that these two spikes have different tropisms for Rhinolophus bat ACE2. Through structural analysis and cell culture experiments, we demonstrate that this tropism is determined by residue 493 of the spike and residues 31 and 35 of ACE2. Our results suggest that SC2r-CoVs exhibit differential ACE2 tropism, which may be driven by adaptation to different Rhinolophus bat ACE2 proteins.

    IMPORTANCE

    The efficiency of infection receptor use is the first step in determining the species tropism of viruses. After the coronavirus disease 2019 pandemic, a number of SARS-CoV-2-related coronaviruses (SC2r-CoVs) were identified in Rhinolophus bats, and some of them can use human angiotensin converting enzyme 2 (ACE2) for the infection receptor without acquiring additional mutations. This means that the potential of certain SC2r-CoVs to cause spillover from bats to humans is "off-the-shelf." However, both SC2r-CoVs and Rhinolophus bat species are highly diversified, and the host tropism of SC2r-CoVs remains unclear. Here, we focus on two Laotian SC2r-CoVs, BANAL-20-236 and BANAL-20-52, and determine how the tropism of SC2r-CoVs to Rhinolophus bat ACE2 is determined at the amino acid resolution level.

    DOI: 10.1128/jvi.00990-23

  • Akaluc bioluminescence offers superior sensitivity to track<i>in vivo</i>dynamics of SARS-CoV-2 infection 査読

    Tomokazu Tamura, Hayato Ito, Shiho Torii, Lei Wang, Rigel Suzuki, Shuhei Tusjino, Akifumi Kamiyama, Yoshitaka Oda, Yuhei Morioka, Saori Suzuki, Kotaro Shirakawa, Kei Sato, Kumiko Yoshimatsu, Yoshiharu Matsuura, Satoshi Iwano, Shinya Tanaka, Takasuke Fukuhara

    2023年10月

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    出版者・発行元:Cold Spring Harbor Laboratory  

    Summary

    Monitoringin vivoviral dynamics can improve our understanding of pathogenicity and tissue tropism. For positive-sense, single-stranded RNA viruses, several studies have attempted to monitor viral kineticsin vivousing reporter genomes. The application of such recombinant viruses can be limited by challenges in accommodating bioluminescent reporter genes in the viral genome. Conventional luminescence also exhibits relatively low tissue permeability and thus less sensitivity for visualizationin vivo. Here we show that unlike NanoLuc bioluminescence, the improved method, termed AkaBLI, allows visualization of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection in Syrian hamsters. By successfully incorporating a codon-optimized Akaluc luciferase gene into the SARS-CoV-2 genome, we visualizedin vivoinfection, including the tissue-specific differences associated with particular variants. Additionally, we could evaluate the efficacy of neutralizing antibodies and mRNA vaccination by monitoring changes in Akaluc signals. Overall, AkaBLI is an effective technology for monitoring viral dynamics in live animals.

    DOI: 10.1101/2023.10.12.561993

  • Multiple mutations of SARS-CoV-2 Omicron BA.2 variant orchestrate its virological characteristics. 査読 国際誌

    Izumi Kimura, Daichi Yamasoba, Hesham Nasser, Hayato Ito, Jiri Zahradnik, Jiaqi Wu, Shigeru Fujita, Keiya Uriu, Jiei Sasaki, Tomokazu Tamura, Rigel Suzuki, Sayaka Deguchi, Arnon Plianchaisuk, Kumiko Yoshimatsu, Yasuhiro Kazuma, Shuya Mitoma, Gideon Schreiber, Hiroyuki Asakura, Mami Nagashima, Kenji Sadamasu, Kazuhisa Yoshimura, Akifumi Takaori-Kondo, Jumpei Ito, Kotaro Shirakawa, Kazuo Takayama, Takashi Irie, Takao Hashiguchi, So Nakagawa, Takasuke Fukuhara, Akatsuki Saito, Terumasa Ikeda, Kei Sato

    Journal of virology   e0101123   2023年10月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Previous studies on the Omicron BA.2 variant suggested that the virological characteristics of BA.2 are determined by the mutations in at least two different regions of the viral genome: in the BA.2 spike gene (enhancing viral fusogenicity and intrinsic pathogenicity) and the non-spike region of the BA.2 genome (leading to intrinsic pathogenicity attenuation). However, the mutations modulating the BA.2 virological properties remain elusive. In this study, we demonstrated that the L371F substitution in the BA.2 spike protein confers greater fusogenicity and intrinsic pathogenicity. Furthermore, we revealed that multiple mutations downstream of the spike gene in the BA.2 genome are responsible for attenuating intrinsic viral pathogenicity and replication capacity. As mutations in the SARS-CoV-2 variant spike proteins could modulate certain virological properties, such as immune evasion and infectivity, most studies have previously focused on spike protein mutations. Our results underpin the importance of non-spike protein-related mutations in SARS-CoV-2 variants. IMPORTANCE Most studies investigating the characteristics of emerging SARS-CoV-2 variants have been focusing on mutations in the spike proteins that affect viral infectivity, fusogenicity, and pathogenicity. However, few studies have addressed how naturally occurring mutations in the non-spike regions of the SARS-CoV-2 genome impact virological properties. In this study, we proved that multiple SARS-CoV-2 Omicron BA.2 mutations, one in the spike protein and another downstream of the spike gene, orchestrally characterize this variant, shedding light on the importance of Omicron BA.2 mutations out of the spike protein.

    DOI: 10.1128/jvi.01011-23

    PubMed

  • Comparative pathogenicity of SARS-CoV-2 Omicron subvariants including BA.1, BA.2, and BA.5 査読 国際誌

    Tamura T., Yamasoba D., Oda Y., Ito J., Kamasaki T., Nao N., Hashimoto R., Fujioka Y., Suzuki R., Wang L., Ito H., Kashima Y., Kimura I., Kishimoto M., Tsuda M., Sawa H., Yoshimatsu K., Yamamoto Y., Nagamoto T., Kanamune J., Suzuki Y., Ohba Y., Suzuki S., Kato M., Ferdous Z., Mouri H., Shishido K., Misawa N., Uriu K., Kosugi Y., Fujita S., Suganami M., Chiba M., Yoshimura R., Nakagawa S., Wu J., Takaori-Kondo A., Shirakawa K., Nagata K., Kazuma Y., Nomura R., Horisawa Y., Tashiro Y., Kawai Y., Hashiguchi T., Suzuki T., Kimura K., Sasaki J., Nakajima Y., Sakamoto A., Yasuhara N., Irie T., Kawabata R., Ikeda T., Nasser H., Shimizu R., Begum M., Takahashi O., Ichihara K., Ueno T., Motozono C., Toyoda M., Saito A., Tanaka Y.L., Butlertanaka E.P., Shofa M., Tabata K., Yokota I., Matsuno K., Takayama K., Tanaka S., Sato K., Fukuhara T.

    Communications Biology   6 ( 1 )   772 - 772   2023年7月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Communications Biology  

    The unremitting emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants necessitates ongoing control measures. Given its rapid spread, the new Omicron subvariant BA.5 requires urgent characterization. Here, we comprehensively analyzed BA.5 with the other Omicron variants BA.1, BA.2, and ancestral B.1.1. Although in vitro growth kinetics of BA.5 was comparable among the Omicron subvariants, BA.5 was much more fusogenic than BA.1 and BA.2. Airway-on-a-chip analysis showed that, among Omicron subvariants, BA.5 had enhanced ability to disrupt the respiratory epithelial and endothelial barriers. Furthermore, in our hamster model, in vivo pathogenicity of BA.5 was slightly higher than that of the other Omicron variants and less than that of ancestral B.1.1. Notably, BA.5 gains efficient virus spread compared with BA.1 and BA.2, leading to prompt immune responses. Our findings suggest that BA.5 has low pathogenicity compared with the ancestral strain but enhanced virus spread /inflammation compared with earlier Omicron subvariants.

    DOI: 10.1038/s42003-023-05081-w

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  • saRNA vaccine expressing membrane-anchored RBD elicits broad and durable immunity against SARS-CoV-2 variants of concern. 査読 国際誌

    Mai Komori, Takuto Nogimori, Amber L Morey, Takashi Sekida, Keiko Ishimoto, Matthew R Hassett, Yuji Masuta, Hirotaka Ode, Tomokazu Tamura, Rigel Suzuki, Jeff Alexander, Yasutoshi Kido, Kenta Matsuda, Takasuke Fukuhara, Yasumasa Iwatani, Takuya Yamamoto, Jonathan F Smith, Wataru Akahata

    Nature communications   14 ( 1 )   2810 - 2810   2023年5月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Several vaccines have been widely used to counteract the global pandemic caused by SARS-CoV-2. However, due to the rapid emergence of SARS-CoV-2 variants of concern (VOCs), further development of vaccines that confer broad and longer-lasting protection against emerging VOCs are needed. Here, we report the immunological characteristics of a self-amplifying RNA (saRNA) vaccine expressing the SARS-CoV-2 Spike (S) receptor binding domain (RBD), which is membrane-anchored by fusing with an N-terminal signal sequence and a C-terminal transmembrane domain (RBD-TM). Immunization with saRNA RBD-TM delivered in lipid nanoparticles (LNP) efficiently induces T-cell and B-cell responses in non-human primates (NHPs). In addition, immunized hamsters and NHPs are protected against SARS-CoV-2 challenge. Importantly, RBD-specific antibodies against VOCs are maintained for at least 12 months in NHPs. These findings suggest that this saRNA platform expressing RBD-TM will be a useful vaccine candidate inducing durable immunity against emerging SARS-CoV-2 strains.

    DOI: 10.1038/s41467-023-38457-x

    PubMed

  • Convergent evolution of the SARS-CoV-2 omicron subvariants leading to the emergence of BQ.1.1 variant 国際誌

    伊東 潤平, 鈴木 理滋, ウリウ ケイヤ, 板倉 友香里, テラカド キムラ カナコ, デグチ サヤカ, 王 磊, 田村 友和, キダ イズミ, 津田 真寿美, 小田 義崇, 鈴木 干城, ササキ ジエイ, 佐々木-田畑 香織, フジタ シゲル, 吉松 組子, 直 亨則, アサクラ ヒロユキ, ナガシマ マミ, サダマツ ケンジ, ヨシムラ カズヒサ, ナガモト テツハル, クラモチ ジン, 鈴木 紗織, カトウ マリエ, モウリ ヒロミ, シシド ケンジ, ミサワ ナオコ, キムラ イズミ, コスギ ユウスケ, スギナミ マイ, チバ ミカ, ヨシムラ リョウ, ヤスダ キョウコ, イイダ ケイコ, オオスミ ナオミ, 中川 草, ワタナベ ユキオ, サカモト アヤカ, ヤスハラ ナオコ, ナカジマ ユカリ, ヤジマ ヒサノ, 白川 康太郎, タカオリ-コンドウ アキフミ, ナガタ カヨコ, カズマ ヤスヒロ, ノムラ リョウスケ, ホリサワ ヨシヒト, タシロ ユウスケ, カワ ユウゴ, 入江 崇, カワバタ リョウコ, シミズ リョウ, タカハシ オトワ, イチハラ キミコ, 本園 千尋, 豊田 真子, 上野 貴将, ニシウチ トモコ, 齊藤 暁, 松野 啓太, 高山 和雄, 橋口 隆生, 田中 伸哉, 福原 崇介, 池田 輝政, 佐藤 佳

    NATURE COMMUNICATIONS   14 ( 1 )   2671 - 2671   2023年5月   eISSN:20411723

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer  

    In late 2022, various Omicron subvariants emerged and cocirculated worldwide. These variants convergently acquired amino acid substitutions at critical residues in the spike protein, including residues R346, K444, L452, N460, and F486. Here, we characterize the convergent evolution of Omicron subvariants and the properties of one recent lineage of concern, BQ.1.1. Our phylogenetic analysis suggests that these five substitutions are recurrently acquired, particularly in younger Omicron lineages. Epidemic dynamics modelling suggests that the five substitutions increase viral fitness, and a large proportion of the fitness variation within Omicron lineages can be explained by these substitutions. Compared to BA.5, BQ.1.1 evades breakthrough BA.2 and BA.5 infection sera more efficiently, as demonstrated by neutralization assays. The pathogenicity of BQ.1.1 in hamsters is lower than that of BA.5. Our multiscale investigations illuminate the evolutionary rules governing the convergent evolution for known Omicron lineages as of 2022.

    DOI: 10.1038/s41467-023-38188-z

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    CiNii Research

  • Protein quality control machinery supports primary ciliogenesis by eliminating GDP-bound Rab8-family GTPases. 査読

    Takahashi, T, Shirai, J, Matsuda, M, Nakanaga, S, Matsushita, S, Wakita, K, Hayashishita, M, Suzuki, R, Noguchi, A, Yokota, N, Kawahara, H

    iScience   2023年4月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.isci.2023.106652

  • Increased flexibility of the SARS-CoV-2 RNA-binding site causes resistance to remdesivir 査読

    Torii, S; Kim, KS; Koseki, J; Suzuki, R; Iwanami, S; Fujita, Y; Jeong, YD; Ito, J; Asakura, H; Nagashima, M; Sadamasu, K; Yoshimura, K; Sato, K; Matsuura, Y; Shimamura, T; Iwami, S; Fukuhara, T

    PLOS PATHOGENS   19 ( 3 )   e1011231 - e1011231   2023年3月   ISSN:1553-7366 eISSN:1553-7374

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    担当区分:筆頭著者   記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Plos Pathogens  

    Mutations continue to accumulate within the SARS-CoV-2 genome, and the ongoing epidemic has shown no signs of ending. It is critical to predict problematic mutations that may arise in clinical environments and assess their properties in advance to quickly implement countermeasures against future variant infections. In this study, we identified mutations resistant to remdesivir, which is widely administered to SARS-CoV-2-infected patients, and discuss the cause of resistance. First, we simultaneously constructed eight recombinant viruses carrying the mutations detected in in vitro serial passages of SARS-CoV-2 in the presence of remdesivir. We confirmed that all the mutant viruses didn’t gain the virus production efficiency without remdesivir treatment. Time course analyses of cellular virus infections showed significantly higher infectious titers and infection rates in mutant viruses than wild type virus under treatment with remdesivir. Next, we developed a mathematical model in consideration of the changing dynamic of cells infected with mutant viruses with distinct propagation properties and defined that mutations detected in in vitro passages canceled the antiviral activities of remdesivir without raising virus production capacity. Finally, molecular dynamics simulations of the NSP12 protein of SARS-CoV-2 revealed that the molecular vibration around the RNA-binding site was increased by the introduction of mutations on NSP12. Taken together, we identified multiple mutations that affected the flexibility of the RNA binding site and decreased the antiviral activity of remdesivir. Our new insights will contribute to developing further antiviral measures against SARS-CoV-2 infection.

    DOI: 10.1371/journal.ppat.1011231

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  • Antiviral Activity of Micafungin and Its Derivatives against SARS-CoV-2 RNA Replication. 査読 国際誌

    Shogo Nakajima, Hirofumi Ohashi, Daisuke Akazawa, Shiho Torii, Rigel Suzuki, Takasuke Fukuhara, Koichi Watashi

    Viruses   15 ( 2 )   2023年2月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Echinocandin antifungal drugs, including micafungin, anidulafungin, and caspofungin, have been recently reported to exhibit antiviral effects against various viruses such as flavivirus, alphavirus, and coronavirus. In this study, we focused on micafungin and its derivatives and analyzed their antiviral activities against severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). The micafungin derivatives Mi-2 and Mi-5 showed higher antiviral activity than micafungin, with 50% maximal inhibitory concentration (IC50) of 5.25 and 6.51 µM, respectively (3.8 to 4.7-fold stronger than micafungin) and 50% cytotoxic concentration (CC50) of >64 µM in VeroE6/TMPRSS2 cells. This high anti-SARS-CoV-2 activity was also conserved in human lung epithelial cell-derived Calu-3 cells. Micafungin, Mi-2, and Mi-5 were suggested to inhibit the intracellular virus replication process; additionally, these compounds were active against SARS-CoV-2 variants, including Delta (AY.122, hCoV-19/Japan/TY11-927/2021), Omicron (BA.1.18, hCoV-19/Japan/TY38-873/2021), a variant resistant to remdesivir (R10/E796G C799F), and a variant resistant to casirivimab/imdevimab antibody cocktail (E406W); thus, our results provide basic evidence for the potential use of micafungin derivatives for developing antiviral agents.

    DOI: 10.3390/v15020452

    PubMed

  • Virological characteristics of the SARS-CoV-2 XBB variant derived from recombination of two Omicron subvariants 国際誌

    田村 友和, 伊東 潤平, 瓜生 慧也, 紀田 泉, 安楽 佑樹, 小田 義崇, 直 亨則, 板倉 友香里, 出口 清香, 鈴木 理滋, 王 磊, 喜多 俊介, 矢島 久乃, 佐々木 慈英, 田畑 香織, 清水 凌, 津田 真寿美, 小杉 優介, 藤田 滋, 潘 琳, 吉松 組子, 鈴木 紗織, 浅倉 弘幸, 長島 真美, 貞升 健志, 吉村 和久, 山本 佑樹, 永元 哲治, 前仲 勝実, 橋口 隆生, 池田 輝政, 福原 崇介, 齊藤 暁, 田中 伸哉, 松野 啓太, 高山 和雄, 佐藤 佳

    NATURE COMMUNICATIONS   14 ( 1 )   2800 - 2800   2023年   eISSN:20411723

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Springer Nature  

    In late 2022, SARS-CoV-2 Omicron subvariants have become highly diversified, and XBB is spreading rapidly around the world. Our phylogenetic analyses suggested that XBB emerged through the recombination of two cocirculating BA.2 lineages, BJ.1 and BM.1.1.1 (a progeny of BA.2.75), during the summer of 2022. XBB.1 is the variant most profoundly resistant to BA.2/5 breakthrough infection sera to date and is more fusogenic than BA.2.75. The recombination breakpoint is located in the receptor-binding domain of spike, and each region of the recombinant spike confers immune evasion and increases fusogenicity. We further provide the structural basis for the interaction between XBB.1 spike and human ACE2. Finally, the intrinsic pathogenicity of XBB.1 in male hamsters is comparable to or even lower than that of BA.2.75. Our multiscale investigation provides evidence suggesting that XBB is the first observed SARS-CoV-2 variant to increase its fitness through recombination rather than substitutions.

    DOI: 10.1038/s41467-023-38435-3

    Web of Science

    Scopus

    PubMed

    CiNii Research

  • Monitoring fusion kinetics of viral and target cell membranes in living cells using a SARS-CoV-2 spike-protein-mediated membrane fusion assay 査読

    Hesham Nasser, Ryo Shimizu, Jumpei Ito, Akatsuki Saito, Kei Sato, Terumasa Ikeda, Keita Matsuno, Naganori Nao, Hirofumi Sawa, Mai Kishimoto, Shinya Tanaka, Masumi Tsuda, Lei Wang, Yoshikata Oda, Marie Kato, Zannatul Ferdous, Hiromi Mouri, Kenji Shishido, Takasuke Fukuhara, Tomokazu Tamura, Rigel Suzuki, Hayato Ito, Daichi Yamasoba, Izumi Kimura, Naoko Misawa, Keiya Uriu, Yusuke Kosugi, Shigeru Fujita, Mai Suganami, Mika Chiba, Ryo Yoshimura, So Nakagawa, Jiaqi Wu, Akifumi Takaori-Kondo, Kotaro Shirakawa, Kayoko Nagata, Yasuhiro Kazuma, Ryosuke Nomura, Yoshihito Horisawa, Yusuke Tashiro, Yugo Kawai, Takashi Irie, Ryoko Kawabata, MST Monira Begum, Otowa Takahashi, Kimiko Ichihara, Takamasa Ueno, Chihiro Motozono, Mako Toyoda, Yuri L. Tanaka, Erika P. Butlertanaka, Maya Shofa, Kazuo Takayama, Rina Hashimoto, Sayaka Deguchi, Takao Hashiguchi, Tateki Suzuki, Kanako Kimura, Jiei Sasaki, Yukari Nakajima, Kaori Tabata

    STAR Protocols   3 ( 4 )   101773 - 101773   2022年12月   ISSN:2666-1667

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    掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    DOI: 10.1016/j.xpro.2022.101773

  • Safety and immunogenicity of SARS-CoV-2 self-amplifying RNA vaccine expressing anchored RBD: a randomised, observer-blind, phase 1 study 査読

    Wataru Akahata, Takashi Sekida, Takuto Nogimori, Hirotaka Ode, Tomokazu Tamura, Kaoru Kono, Yoko Kazami, Ayaka Washizaki, Yuji Masuta, Rigel Suzuki, Kenta Matsuda, Mai Komori, Amber Morey, Keiko Ishimoto, Misako Nakata, Tomoko Hasunuma, Takasuke Fukuhara, Yasumasa Iwatani, Takuya Yamamoto, Jonathan F Smith, Nobuaki Sato

    2022年11月

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    出版者・発行元:Cold Spring Harbor Laboratory  

    Summary

    BACKGROUND

    VLPCOV-01 is a lipid nanoparticle-encapsulated self-amplifying RNA (saRNA) vaccine that expresses a membrane-anchored receptor-binding domain (RBD) derived from the SARS-CoV-2 spike protein.

    METHODS

    A phase 1 study of VLPCOV-01 was conducted at Medical Corporation Heishinkai OPHAC Hospital, Japan. Participants aged 18 to 55 or ≥65 years who had completed two doses of the BNT162b2 mRNA vaccine 6 to 12 months previously were randomised to receive one intramuscular vaccination of 0·3, 1·0, or 3·0 μg VLPCOV-01, 30 μg BNT162b2, or placebo between February 16, 2022, and March 17, 2022. Solicited adverse events were collected up to 6 days post-administration. Interim immunogenicity analyses included SARS-CoV-2 IgG and neutralising antibody titres. Follow-up for safety and immunogenicity evaluation is ongoing. (The trial is registered: jRCT2051210164).

    FINDINGS

    92 healthy adults were enrolled, with 60 participants receiving VLPCOV-01. No serious adverse events were reported up to 26 weeks, and no prespecified trial-halting events were met. VLPCOV-01 induced robust IgG titres against SARS-CoV-2 RBD protein that were maintained up to 26 weeks in non-elderly participants, with geometric means ranging from 5037 (95% CI 1272–19,940) at 0·3 μg to 12,873 (95% CI 937–17,686) at 3 μg, in comparison to 3166 (95% CI 1619–6191) with 30 μg BNT162b2. Among elderly participants, IgG titres at 26 weeks post-vaccination with 3 μg VLPCOV-01 were 9865 (95% CI 4396–22138) compared to 4183 (95% CI 1436–12180) following vaccination with 30 μg BNT162b2. Pseudovirus neutralising antibody responses were observed against multiple SARS-CoV-2 variants and strongly correlated with anti-SARS-CoV-2 IgG (r=0·950, p&lt;0·001).

    INTERPRETATION

    VLPCOV-01 is immunogenic following low dose administration, with anti-SARS-CoV-2 immune responses comparable to BNT162b2. These findings support further development of VLPCOV-01 as a COVID-19 booster vaccine and the potential for saRNA vectors as a vaccine platform.

    FUNDING

    Supported by AMED, Grant No. JP21nf0101627.

    DOI: 10.1101/2022.11.21.22281000

  • Virological characteristics of the SARS-CoV-2 Omicron BA.2.75 variant 国際誌

    齊藤 暁, 田村 友和, 出口 清香, 田畑 耕史郎, 安楽 佑樹, 木村 出海, 伊東 潤平, 山岨 大智, 豊田 真子, 永田 佳代子, 瓜生 慧也, 小杉 優介, 藤田 滋, 清水 凌, 小田 義崇, 鈴木 理滋, 伊藤 駿, 直 亨則, 王 磊, 津田 真寿美, 吉松 組子, 倉持 仁, 喜多 俊介, 田畑 香織, 福原 秀雄, 前仲 勝実, 山本 佑樹, 永元 哲治, 浅倉 弘幸, 長島 真美, 貞升 健志, 吉村 和久, 上野 貴将, 高折 晃史, 白川 康太郎, 澤 洋文, 入江 崇, 橋口 隆生, 高山 和雄, 松野 啓太, 田中 伸哉, 池田 輝政, 福原 崇介, 佐藤 佳

    CELL HOST & MICROBE   30 ( 11 )   1540 - 1555   2022年11月   ISSN:19313128 eISSN:19346069

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Elsevier BV  

    The SARS-CoV-2 Omicron BA.2.75 variant emerged in May 2022. BA.2.75 is a BA.2 descendant but is phylogenetically distinct from BA.5, the currently predominant BA.2 descendant. Here, we show that BA.2.75 has a greater effective reproduction number and different immunogenicity profile than BA.5. We determined the sensitivity of BA.2.75 to vaccinee and convalescent sera as well as a panel of clinically available antiviral drugs and antibodies. Antiviral drugs largely retained potency, but antibody sensitivity varied depending on several key BA.2.75-specific substitutions. The BA.2.75 spike exhibited a profoundly higher affinity for its human receptor, ACE2. Additionally, the fusogenicity, growth efficiency in human alveolar epithelial cells, and intrinsic pathogenicity in hamsters of BA.2.75 were greater than those of BA.2. Our multilevel investigations suggest that BA.2.75 acquired virological properties independent of BA.5, and the potential risk of BA.2.75 to global health is greater than that of BA.5.

    DOI: 10.1016/j.chom.2022.10.003

    Web of Science

    Scopus

    PubMed

    CiNii Research

  • SARS-CoV-2 Omicron detection by antigen tests using saliva. 査読 国際誌

    Kaoru Murakami, Sumio Iwasaki, Satoshi Oguri, Kumiko Tanaka, Rigel Suzuki, Kasumi Hayasaka, Shinichi Fujisawa, Chiaki Watanabe, Satoshi Konno, Isao Yokota, Takasuke Fukuhara, Masaaki Murakami, Takanori Teshima

    Journal of clinical virology plus   2 ( 4 )   100109 - 100109   2022年11月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    The Omicron emerged in November 2021 and became the predominant SARS-CoV-2 variant globally. It spreads more rapidly than ancestral lineages and its rapid detection is critical for the prevention of disease outbreaks. Antigen tests such as immunochromatographic assay (ICA) and chemiluminescent enzyme immunoassay (CLEIA) yield results more quickly than standard polymerase chain reaction (PCR). However, their utility for the detection of the Omicron variant remains unclear. We herein evaluated the performance of ICA and CLEIA in saliva from 51 patients with Omicron and 60 PCR negative individuals. The sensitivity and specificity of CLEIA were 98.0% (95%CI: 89.6-100.0%) and 100.0% (95%CI: 94.0-100.0%), respectively, with fine correlation with cycle threshold (Ct) values. The sensitivity and specificity of ICA were 58.8% (95%CI: 44.2-72.4%) and 100.0% (95%CI: 94.0-100.0%), respectively. The sensitivity of ICA was 100.0% (95%CI: 80.5-100.0%) when PCR Ct was less than 25. The Omicron can be efficiently detected in saliva by CLEIA. ICA also detects high viral load Omicron using saliva.

    DOI: 10.1016/j.jcvp.2022.100109

    PubMed

  • Virological characteristics of the SARS-CoV-2 Omicron BA.2 subvariants, including BA.4 and BA.5 査読 国際誌

    Kimura, I; Yamasoba, D; Tamura, T; Nao, N; Suzuki, T; Oda, Y; Mitoma, S; Ito, J; Nasser, H; Zahradnik, J; Uriu, K; Fujita, S; Kosugi, Y; Wang, L; Tsuda, M; Kishimoto, M; Ito, H; Suzuki, R; Shimizu, R; Begum, MM; Yoshimatsu, K; Kimura, KT; Sasaki, J; Sasaki-Tabata, K; Yamamoto, Y; Nagamoto, T; Kanamune, J; Kobiyama, K; Asakura, H; Nagashima, M; Sadamasu, K; Yoshimura, K; Shirakawa, K; Takaori-Kondo, A; Kuramochi, J; Schreiber, G; Ishii, KJ; Hashiguchi, T; Ikeda, T; Saito, A; Fukuhara, T; Tanaka, S; Matsuno, K; Sato, K

    CELL   185 ( 21 )   3992 - +   2022年10月   ISSN:0092-8674 eISSN:1097-4172

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    記述言語:英語   掲載種別:研究論文(学術雑誌)   出版者・発行元:Cell  

    After the global spread of the SARS-CoV-2 Omicron BA.2, some BA.2 subvariants, including BA.2.9.1, BA.2.11, BA.2.12.1, BA.4, and BA.5, emerged in multiple countries. Our statistical analysis showed that the effective reproduction numbers of these BA.2 subvariants are greater than that of the original BA.2. Neutralization experiments revealed that the immunity induced by BA.1/2 infections is less effective against BA.4/5. Cell culture experiments showed that BA.2.12.1 and BA.4/5 replicate more efficiently in human alveolar epithelial cells than BA.2, and particularly, BA.4/5 is more fusogenic than BA.2. We further provided the structure of the BA.4/5 spike receptor-binding domain that binds to human ACE2 and considered how the substitutions in the BA.4/5 spike play roles in ACE2 binding and immune evasion. Moreover, experiments using hamsters suggested that BA.4/5 is more pathogenic than BA.2. Our multiscale investigations suggest that the risk of BA.2 subvariants, particularly BA.4/5, to global health is greater than that of original BA.2.

    DOI: 10.1016/j.cell.2022.09.018

    Web of Science

    Scopus

    PubMed

  • Antiviral activity of ciclesonide acetal derivatives blocking SARS-CoV-2 RNA replication 査読

    Genichiro Tsuji, Shogo Nakajima, Koichi Watashi, Shiho Torii, Rigel Suzuki, Takasuke Fukuhara, Nobumichi Ohoka, Takao Inoue, Yosuke Demizu

    Journal of Pharmacological Sciences   149 ( 3 )   81 - 84   2022年7月   ISSN:1347-8613 eISSN:1347-8648

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    掲載種別:研究論文(学術雑誌)  

    DOI: 10.1016/j.jphs.2022.04.001

    Scopus

    PubMed

  • SARS-CoV-2 RNA複製をブロックするシクレソニドアセタール誘導体の抗ウイルス活性(Antiviral activity of ciclesonide acetal derivatives blocking SARS-CoV-2 RNA replication) 査読

    Tsuji Genichiro, Nakajima Shogo, Watashi Koichi, Torii Shiho, Suzuki Rigel, Fukuhara Takasuke, Ohoka Nobumichi, Inoue Takao, Demizu Yosuke

    Journal of Pharmacological Sciences   149 ( 3 )   81 - 84   2022年7月   ISSN:1347-8613

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    記述言語:英語   出版者・発行元:(公社)日本薬理学会  

    シクレソニド(CIC)のアセタール部位とエステル部位を加水分解して得たCIC-ジオール(16α-ヒドロキシプレドニゾロン)を原料として16種類のCIC-アセタール誘導体をデザイン・合成し、抗重症急性呼吸器症候群コロナウイルス2型(SARS-CoV-2)活性を比較した。その結果、これらのCIC-アセタール誘導体のうち、直鎖アルキル鎖を持つ数種のCIC-アセタール誘導体がCIC-2と比較して強力なウイルスコピー数減少活性を示した。

  • Secretory glycoprotein NS1 plays a crucial role in the particle formation of flaviviruses. 査読 国際誌

    Tomokazu Tamura, Shiho Torii, Kentaro Kajiwara, Itsuki Anzai, Yoichiro Fujioka, Kisho Noda, Shuhei Taguwa, Yuhei Morioka, Rigel Suzuki, Yuzy Fauzyah, Chikako Ono, Yusuke Ohba, Masato Okada, Takasuke Fukuhara, Yoshiharu Matsuura

    PLoS pathogens   18 ( 6 )   e1010593   2022年6月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Flaviviruses, which are globally distributed and cause a spectrum of potentially severe illnesses, pose a major threat to public health. Although Flaviviridae viruses, including flaviviruses, possess similar genome structures, only the flaviviruses encode the non-structural protein NS1, which resides in the endoplasmic reticulum (ER) and is secreted from cells after oligomerization. The ER-resident NS1 is known to be involved in viral genome replication, but the essential roles of secretory NS1 in the virus life cycle are not fully understood. Here we characterized the roles of secretory NS1 in the particle formation of flaviviruses. We first identified an amino acid residue essential for the NS1 secretion but not for viral genome replication by using protein-protein interaction network analyses and mutagenesis scanning. By using the recombinant flaviviruses carrying the identified NS1 mutation, we clarified that the mutant flaviviruses employed viral genome replication. We then constructed a recombinant NS1 with the identified mutation and demonstrated by physicochemical assays that the mutant NS1 was unable to form a proper oligomer or associate with liposomes. Finally, we showed that the functions of NS1 that were lost by the identified mutation could be compensated for by the in trans-expression of Erns of pestiviruses and host exchangeable apolipoproteins, which participate in the infectious particle formation of pestiviruses and hepaciviruses in the family Flaviviridae, respectively. Collectively, our study suggests that secretory NS1 plays a role in the particle formation of flaviviruses through its interaction with the lipid membrane.

    DOI: 10.1371/journal.ppat.1010593

    PubMed

  • Virological characteristics of the SARS-CoV-2 Omicron BA.2 spike. 査読 国際誌

    Daichi Yamasoba, Izumi Kimura, Hesham Nasser, Yuhei Morioka, Naganori Nao, Jumpei Ito, Keiya Uriu, Masumi Tsuda, Jiri Zahradnik, Kotaro Shirakawa, Rigel Suzuki, Mai Kishimoto, Yusuke Kosugi, Kouji Kobiyama, Teppei Hara, Mako Toyoda, Yuri L Tanaka, Erika P Butlertanaka, Ryo Shimizu, Hayato Ito, Lei Wang, Yoshitaka Oda, Yasuko Orba, Michihito Sasaki, Kayoko Nagata, Kumiko Yoshimatsu, Hiroyuki Asakura, Mami Nagashima, Kenji Sadamasu, Kazuhisa Yoshimura, Jin Kuramochi, Motoaki Seki, Ryoji Fujiki, Atsushi Kaneda, Tadanaga Shimada, Taka-Aki Nakada, Seiichiro Sakao, Takuji Suzuki, Takamasa Ueno, Akifumi Takaori-Kondo, Ken J Ishii, Gideon Schreiber, Hirofumi Sawa, Akatsuki Saito, Takashi Irie, Shinya Tanaka, Keita Matsuno, Takasuke Fukuhara, Terumasa Ikeda, Kei Sato

    Cell   185 ( 12 )   2103 - 2115   2022年5月

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    記述言語:英語   掲載種別:研究論文(学術雑誌)  

    Soon after the emergence and global spread of the SARS-CoV-2 Omicron lineage BA.1, another Omicron lineage, BA.2, began outcompeting BA.1. The results of statistical analysis showed that the effective reproduction number of BA.2 is 1.4-fold higher than that of BA.1. Neutralization experiments revealed that immunity induced by COVID vaccines widely administered to human populations is not effective against BA.2, similar to BA.1, and that the antigenicity of BA.2 is notably different from that of BA.1. Cell culture experiments showed that the BA.2 spike confers higher replication efficacy in human nasal epithelial cells and is more efficient in mediating syncytia formation than the BA.1 spike. Furthermore, infection experiments using hamsters indicated that the BA.2 spike-bearing virus is more pathogenic than the BA.1 spike-bearing virus. Altogether, the results of our multiscale investigations suggest that the risk of BA.2 to global health is potentially higher than that of BA.1.

    DOI: 10.1016/j.cell.2022.04.035

    PubMed

▼全件表示

講演・口頭発表等

  • 一回感染型新型コロナウイルスの作製と有用性の評価に関する研究

    小杉 優女、鈴木 紗織、鈴木 理滋、田村 友和、陳 犖、佐藤 佳、福原 崇介

    第72回 日本ウイルス学会学術集会  2025年10月 

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    開催年月日: 2025年10月

    記述言語:日本語   会議種別:口頭発表(一般)  

    開催地:アクトシティ浜松   国名:日本国  

  • B型肝炎ウイルスの複製を阻害する 新規化合物の同定及び機能解析 国際共著

    鈴木理滋、Yuzy Fauzyah、齋藤智哉、辻野修平、鈴木紗織、田村友和、小野慎子、松浦善治、福原崇介

    第72回 日本ウイルス学会学術集会  2025年10月 

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    開催年月日: 2025年10月

    記述言語:日本語   会議種別:口頭発表(一般)  

    開催地:アクトシティ浜松   国名:日本国  

  • B型肝炎ウイルス複製サイクルにおけるCOPI 複合体の機能解析

    小杉 優女、鈴木 理滋、齋藤智哉、馬 媛、梁 礼涵、鈴木 紗織、田村 友和、福原 崇介

    第2回 G2P-Japan 研究集会  2025年8月 

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    開催年月日: 2025年8月

    記述言語:日本語   会議種別:口頭発表(一般)  

    開催地:北海道大学オープンイノベーションハブ エンレイソウ   国名:日本国  

  • Adaptation of SARS-CoV-2 to C57BL/6 mice and its application in breakthrough infection models 国際会議

    Rigel Suzuki, Shuhei Tsujino, Lei Wang, Yuji Masuta, Takuto Nogimori, Yoshitaka Oda, Masumi Tsuda, Hayato Ito, Saori Suzuki, Tomokazu Tamura, Naganori Nao, Keita Matsuno, Takuya Yamamoto, Shinya Tanaka, Takasuke Fukuhara

    ASV 2025  2025年7月 

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    開催年月日: 2025年7月

    記述言語:英語   会議種別:口頭発表(一般)  

    開催地:montreal   国名:カナダ  

  • COPG1 is involved in replication of hepatitis B virus 国際会議

    Yume Kosugi, Rigel Suzuki, Tomoya Saito, Yuan Ma, Lihan Liang, Saori Suzuki, Tomokazu Tamura, Takasuke Fukuhara

    11TH KOREA-JAPAN-TAIWAN HBV RESEARCH SYMPOSIUM  2025年5月 

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    開催年月日: 2025年5月

    記述言語:英語   会議種別:ポスター発表  

    開催地:National Taiwan University College of Medicine   国名:台湾  

  • 膜アンカー型RBDを発現するsaRNAワクチンによるSARS-CoV-2に対する強力な抗原特異的T細胞応答(Potent antigen-specific T-cell responses by saRNA vaccine expressing membrane-anchored RBD against SARS-CoV-2)

    Nogimori Takuto, Komori Mai, Masuta Yuji, Ode Hirotaka, Tamura Tomokazu, Suzuki Rigel, Matsuda Kenta, Fukuhara Takasuke, Iwatani Yasumasa, Akahata Wataru, Yamamoto Takuya

    日本免疫学会総会・学術集会記録  2023年12月  (NPO)日本免疫学会

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    記述言語:英語  

  • 腎移植レシピエントにおけるSARS-CoV-2ワクチンの臨床効果についての検討

    川代 啓太, 堀田 記世彦, 鈴木 理滋, 岩原 直也, 広瀬 貴行, 福原 崇介, 篠原 信雄

    泌尿器外科  2025年9月  医学図書出版(株)

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    記述言語:日本語  

  • 腎移植レシピエントにおけるCOVID-19ワクチン接種後の獲得免疫の検討

    川代 啓太, 鈴木 理滋, 野木森 拓人, 岩原 直也, 広瀬 貴行, 山本 拓也, 福原 崇介, 堀田 記世彦, 篠原 信雄

    移植  2023年9月  (一社)日本移植学会

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    記述言語:日本語  

  • 牛ウイルス性下痢ウイルスの迅速な組換えウイルスの作出

    田村 友和, 荻野 紗帆, 日尾野 隆大, 鈴木 理滋, 鈴木 紗織, 磯田 典和, 迫田 義博, 福原 崇介

    日本獣医学会学術集会講演要旨集  2023年9月  (公社)日本獣医学会

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    記述言語:日本語  

  • 新型コロナウイルス感染症の持続感染動物モデルの開発

    田村 友和, 市川 貴也, 辻野 修平, 鈴木 理滋, 鈴木 紗織, 福原 崇介

    日本獣医学会学術集会講演要旨集  2024年8月  (公社)日本獣医学会

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    記述言語:日本語  

  • 新型コロナウイルス変異株のスパイクタンパク質遺伝子以外に認めた変異の意義

    田村 友和, 辻野 修平, 鈴木 理滋, 鈴木 紗織, 福原 崇介

    日本獣医学会学術集会講演要旨集  2025年9月  (公社)日本獣医学会

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    記述言語:日本語  

  • ヒトオルガノイドおよびハムスターモデルを用いたSARS-CoV-2関連コウモリコロナウイルスであるBANAL-20-236のウイルス学的性状解析

    藤田 滋, Plianchaisuk Arnon, 出口 清香, 伊藤 駿, 直 亨則, 王 磊, Nasser Hesham, 田村 友和, 木村 出海, 鹿島 幸恵, 鈴木 理滋, 鈴木 紗織, 紀田 泉, 津田 真寿美, 小田 義崇, 橋本 里菜, 渡邉 幸夫, 瓜生 慧也, 山岨 大智, 郭 子毅, Hinay Alfredo Jr., 小杉 優介, 陳 犖, 潘 琳, 郭 悠, 山本 祐樹, 永元 哲治, 長島 真美, 浅倉 弘幸, 貞升 健志, 吉村 和久, 鈴木 穣, 伊東 潤平, 池田 輝政, 田中 伸哉, 松野 啓太, 福原 崇介, 高山 和雄, 佐藤 佳

    日本獣医学会学術集会講演要旨集  2024年8月  (公社)日本獣医学会

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    記述言語:日本語  

  • アデノベクターを用いたHBVゲノム切断による抗HBV効果の検討

    鈴木 紗織, 鈴木 理滋, 中西 友子, 坂本 裕貴, 山地 恵, 中村 眞理子, 田村 友和, 斎藤 泉, 福原 崇介

    日本獣医学会学術集会講演要旨集  2025年9月  (公社)日本獣医学会

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    記述言語:日本語  

  • SARS-CoV-2既感染の腎移植レシピエントにおけるSARS-CoV-2ワクチンの臨床的有効性(Clinical effect of SARS-CoV-2 vaccination in kidney transplant recipients upon SARS-CoV-2 infection)

    Kawashiro Keita, Hotta Kiyohiko, Hirose Takayuki, Iwahara Naoya, Suzuki Rigel, Fukuhara Takasuke, Shinohara Nobuo

    日本泌尿器科学会総会  2024年4月  (一社)日本泌尿器科学会総会事務局

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    記述言語:英語  

  • HBV由来担癌マウスを用いたCas9-NickaseシステムによるHBxノックアウト効果の検討

    鈴木 紗織, 鳥居 志保, 小林 展大, 坂本 裕貴, 鈴木 理滋, 田村 友和, 福原 崇介

    日本獣医学会学術集会講演要旨集  2024年8月  (公社)日本獣医学会

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    記述言語:日本語  

  • HBc抗体陽性非B非C肝細胞癌とHBコア関連抗原の関連性について

    齋藤 智哉, 鈴木 理滋, Akhinur Rahman, 森 健人, Samiul Rajib, 小林 展大, 折茂 達也, 柿坂 達彦, 鈴木 沙織, 田村 友和, 佐藤 賢文, 福原 崇介, 武冨 紹信

    日本外科学会定期学術集会抄録集  2025年4月  (一社)日本外科学会

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    記述言語:日本語  

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MISC

  • 昆虫特異的フラビウイルスによる蚊媒介性フラビウイルスの増殖干渉効果

    森健人, 田村友和, 田村友和, 田村友和, 鈴木理滋, 鈴木理滋, 鈴木紗織, 鈴木紗織, 大場靖子, 大場靖子, 大場靖子, 福原崇介, 福原崇介, 福原崇介, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   71st   2024年

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  • 新型コロナウイルス感染症の持続感染動物モデルの開発

    田村友和, 市川貴也, 辻野修平, 鈴木理滋, 鈴木紗織, 福原崇介, 田村友和, 市川貴也, 鈴木理滋, 鈴木紗織, 福原崇介, 田村友和, 福原崇介, 福原崇介

    日本獣医学会学術集会講演要旨集   167th   2024年   ISSN:1347-8621

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  • NEDD4-binding protein1はHBV RNAsを分解することでHBVの複製を抑制する

    鈴木紗織, 鈴木紗織, 小林展大, 小林展大, 鈴木理滋, 鈴木理滋, 坂本裕貴, 齋藤智哉, 齋藤智哉, 泉琢磨, 野田暉翔, 奥崎大介, 鐘江裕美, 林佐奈衣, 田中靖人, 松浦善治, 竹内理, 田村友和, 田村友和, 武冨紹信, 福原崇介, 福原崇介, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   71st   2024年

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  • 腎移植レシピエントにおけるCOVID-19ワクチン接種後の獲得免疫の検討

    川代啓太, 鈴木理滋, 野木森拓人, 岩原直也, 広瀬貴行, 山本拓也, 福原崇介, 堀田記世彦, 篠原信雄

    日本移植学会総会(Web)   59th   2023年   ISSN:0578-7947

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  • 新型コロナウイルスオミクロン亜株のモデル動物ハムスターにおける病原性

    田村友和, 田村友和, 伊東潤平, 鈴木理滋, 鈴木理滋, 直亨則, 小田義崇, 瓜生慧也, 伊藤駿, 王磊, 紀田泉, 板倉友香里, 板倉友香里, 津田真寿美, 鈴木紗織, 鈴木紗織, 松野啓太, 松野啓太, 田中伸哉, 佐藤佳, 福原崇介, 福原崇介, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   70th   2023年

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  • 高速リーバースジェネティクスのキャップ非依存性+ssRNAウイルスへの応用

    山本紘嵩, 田村友和, 伊藤駿, 鈴木理滋, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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  • 肝疾患患者の変異株に対するワクチン効果の評価系の確立と免疫抑制の影響

    伊藤駿, 冨山貴央, 鈴木理滋, 田村友和, 吉住朋晴, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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  • 数理モデルと分子動力学シミュレーションを用いたレムデシビル耐性SARS-CoV-2変異株の解析

    鈴木理滋, 鳥居志保, 鳥居志保, キム クァンス, 小関準, 岩波翔也, 藤田泰久, チョン ヨンダム, 田村友和, 松浦善治, 島村徹平, 岩見真吾, 岩見真吾, 岩見真吾, 岩見真吾, 岩見真吾, 岩見真吾, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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  • フラビウイルスの粒子産生における分泌型NS1タンパク質の役割

    田村友和, 田村友和, 鳥居志保, 鳥居志保, 梶原健太郎, 安齋樹, 藤岡容一朗, 野田暉翔, 田鍬修平, 森岡佑平, 森岡佑平, 鈴木理滋, YUZY Fauzyah, 小野慎子, 小野慎子, 大場雄介, 岡田雅人, 福原崇介, 福原崇介, 松浦善治, 松浦善治

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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  • SARS-CoV-2スパイクタンパク質の切断と細胞融合活性・病原性の関連

    瓜生慧也, HESHAM Nasser, 鈴木理滋, 岸本麻衣, 澤洋文, 福原崇介, 池田輝政, 佐藤佳

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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  • HBV感染に関与するRNA結合タンパク質の同定とその機能解析

    小林展大, 小林展大, 齋藤智哉, 齋藤智哉, 鈴木理滋, 田村友和, 武冨紹信, 福原崇介

    日本ウイルス学会学術集会プログラム・予稿集(Web)   69th   2022年

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所属学協会

  • 盛和スカラーズソサエティ

    2026年4月 - 現在

  • 米国ウイルス学会

    2025年4月 - 現在

  • 日本ウイルス学会

    2020年4月 - 現在

共同研究・競争的資金等の研究課題

  • 新規宿主因子によるB型肝炎ウイルス転写制御機構の包括的解析

    2026年4月 - 2028年3月

    稲盛財団  稲盛研究助成 はぐぐむコース 

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    担当区分:研究代表者  資金種別:科研費以外の競争的資金

  • RNA結合タンパク質が司るHBVの新しい複製機構の解明

    2024年4月 - 2026年3月

    日本学術振興会  科学研究費助成事業 若手研究 

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    担当区分:研究代表者  資金種別:科研費

  • 今後出現する新興コロナウイルスを見据えた研究基盤の構築

    2022年4月 - 2027年3月

    武田科学振興財団  ハイリスク新興感染症研究助成 

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    担当区分:研究代表者  資金種別:科研費以外の競争的資金

  • オートファジーを介した新型コロナウイルスの新しい病原性機構の解明

    2021年4月 - 2023年3月

    日本学術振興会  科学研究費助成事業 若手研究 

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    担当区分:研究代表者  資金種別:科研費

担当授業科目

  • ウイルス学 各論

    2025年10月 - 現在   後期

  • ウイルス学 総論

    2025年10月 - 2026年3月   後期

他大学・他機関等の客員・兼任・非常勤講師等

  • 2025年  北海道大学  区分:客員教員  国内外の区分:国内