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Im JH, Duic I, Yoshimura SH, Onomoto K, Yoneyama M, Kato H, Fujita T. Mechanisms of length-dependent recognition of viral double-stranded RNA by RIG-I. Sci Rep 2023; 13:6318. [PMID: 37072508 PMCID: PMC10113236 DOI: 10.1038/s41598-023-33208-w] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 04/09/2023] [Indexed: 05/03/2023] Open
Abstract
Retinoic acid-inducible gene I (RIG-I) is the most front-line cytoplasmic viral RNA sensor and induces antiviral immune responses. RIG-I recognizes short double-stranded (dsRNA) (< 500 bp), but not long dsRNA (> 500 bp) to trigger antiviral signaling. Since RIG-I is capable of binding with dsRNA irrespective of size, length-dependent RIG-I signaling remains elusive. Here, we demonstrated that RIG-I bound to long dsRNA with slow kinetics. Remarkably, RIG-I/short dsRNA complex efficiently dissociated in an ATP hydrolysis-dependent manner, whereas RIG-I/long dsRNA was stable and did not dissociate. Our study suggests that the dissociation of RIG-I from RIG-I/dsRNA complex could be a step for efficient antiviral signaling. Dissociated RIG-I exhibited homo-oligomerization, acquiring ability to physically associate with MAVS, and biological activity upon introduction into living cells. We herein discuss common and unique mechanisms of viral dsRNA recognition by RIG-I and MDA5.
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Affiliation(s)
- Jung Hyun Im
- Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Kyoto, 606-8501, Japan
- Laboratory of Regulatory Information, Institute for Frontier Life and Medical Sciences, Kyoto University, Kyoto, 606-8397, Japan
| | - Ivana Duic
- Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Kyoto, 606-8501, Japan
- R&D Department, xFOREST Therapeutics Co., Ltd., Kyoto, 602-0841, Japan
| | - Shige H Yoshimura
- Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Kyoto, 606-8501, Japan
| | - Koji Onomoto
- Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, Chiba, 260-8673, Japan
| | - Mitsutoshi Yoneyama
- Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, Chiba, 260-8673, Japan
- Research Institute of Disaster Medicine, Chiba University, Chiba, 260-0856, Japan
| | - Hiroki Kato
- Institute for Cardiovascular Immunology, University Hospital Bonn, Bonn, 53127, Germany
| | - Takashi Fujita
- Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Kyoto, 606-8501, Japan.
- Laboratory of Regulatory Information, Institute for Frontier Life and Medical Sciences, Kyoto University, Kyoto, 606-8397, Japan.
- Institute for Cardiovascular Immunology, University Hospital Bonn, Bonn, 53127, Germany.
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Zuo W, Wakimoto M, Kozaiwa N, Shirasaka Y, Oh SW, Fujiwara S, Miyachi H, Kogure A, Kato H, Fujita T. PKR and TLR3 trigger distinct signals that coordinate the induction of antiviral apoptosis. Cell Death Dis 2022; 13:707. [PMID: 35970851 PMCID: PMC9378677 DOI: 10.1038/s41419-022-05101-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2022] [Revised: 07/08/2022] [Accepted: 07/13/2022] [Indexed: 01/21/2023]
Abstract
RIG-I-like receptors (RLRs), protein kinase R (PKR), and endosomal Toll-like receptor 3 (TLR3) sense viral non-self RNA and are involved in cell fate determination. However, the mechanisms by which intracellular RNA induces apoptosis, particularly the role of each RNA sensor, remain unclear. We performed cytoplasmic injections of different types of RNA and elucidated the molecular mechanisms underlying viral dsRNA-induced apoptosis. The results obtained revealed that short 5'-triphosphate dsRNA, the sole ligand of RIG-I, induced slow apoptosis in a fraction of cells depending on IRF-3 transcriptional activity and IFN-I production. However, intracellular long dsRNA was sensed by PKR and TLR3, which activate distinct signals, and synergistically induced rapid apoptosis. PKR essentially induced translational arrest, resulting in reduced levels of cellular FLICE-like inhibitory protein and functioned in the TLR3/TRIF-dependent activation of caspase 8. The present results demonstrated that PKR and TLR3 were both essential for inducing the viral RNA-mediated apoptosis of infected cells and the arrest of viral production.
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Affiliation(s)
- Wenjie Zuo
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Mai Wakimoto
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Noriyasu Kozaiwa
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Yutaro Shirasaka
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Seong-Wook Oh
- grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Shiori Fujiwara
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Hitoshi Miyachi
- grid.258799.80000 0004 0372 2033Institute for Virus Research, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Amane Kogure
- grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan
| | - Hiroki Kato
- grid.15090.3d0000 0000 8786 803XInstitute for Cardiovascular Immunology, University Hospital Bonn, Bonn, 53127 Germany
| | - Takashi Fujita
- grid.258799.80000 0004 0372 2033Division of Integrated Life Science, Graduate School of Biostudies, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.258799.80000 0004 0372 2033Laboratory of Regulatory Information, Institute for Frontier Life and Medical Science, Kyoto University, Sakyo-ku, Kyoto, 606-8507 Japan ,grid.15090.3d0000 0000 8786 803XInstitute for Cardiovascular Immunology, University Hospital Bonn, Bonn, 53127 Germany
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Onomoto K, Onoguchi K, Yoneyama M. Regulation of RIG-I-like receptor-mediated signaling: interaction between host and viral factors. Cell Mol Immunol 2021; 18:539-555. [PMID: 33462384 PMCID: PMC7812568 DOI: 10.1038/s41423-020-00602-7] [Citation(s) in RCA: 178] [Impact Index Per Article: 59.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2020] [Accepted: 11/17/2020] [Indexed: 01/31/2023] Open
Abstract
Retinoic acid-inducible gene I (RIG-I)-like receptors (RLRs) are RNA sensor molecules that play essential roles in innate antiviral immunity. Among the three RLRs encoded by the human genome, RIG-I and melanoma differentiation-associated gene 5, which contain N-terminal caspase recruitment domains, are activated upon the detection of viral RNAs in the cytoplasm of virus-infected cells. Activated RLRs induce downstream signaling via their interactions with mitochondrial antiviral signaling proteins and activate the production of type I and III interferons and inflammatory cytokines. Recent studies have shown that RLR-mediated signaling is regulated by interactions with endogenous RNAs and host proteins, such as those involved in stress responses and posttranslational modifications. Since RLR-mediated cytokine production is also involved in the regulation of acquired immunity, the deregulation of RLR-mediated signaling is associated with autoimmune and autoinflammatory disorders. Moreover, RLR-mediated signaling might be involved in the aberrant cytokine production observed in coronavirus disease 2019. Since the discovery of RLRs in 2004, significant progress has been made in understanding the mechanisms underlying the activation and regulation of RLR-mediated signaling pathways. Here, we review the recent advances in the understanding of regulated RNA recognition and signal activation by RLRs, focusing on the interactions between various host and viral factors.
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Affiliation(s)
- Koji Onomoto
- Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, 1-8-1, Inohana, Chuo-ku, Chiba, 260-8673, Japan
| | - Kazuhide Onoguchi
- Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, 1-8-1, Inohana, Chuo-ku, Chiba, 260-8673, Japan
| | - Mitsutoshi Yoneyama
- Division of Molecular Immunology, Medical Mycology Research Center, Chiba University, 1-8-1, Inohana, Chuo-ku, Chiba, 260-8673, Japan.
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