β-coronavirus rearranges the host cellular membranes to form double-membrane vesicles (DMVs) via NSP3/4, which anchor replication–transcription complexes (RTCs), thereby constituting the replication organelles (ROs). However, the impact of specific domains within NSP3/4 on DMV formation and RO assembly remains largely unknown. By using cryogenic-correlated light and electron microscopy (cryo-CLEM), we discovered that the N-terminal and C-terminal domains (NTD and CTD) of SARS-CoV-2 NSP3 are essential for DMV formation. Nevertheless, the CTD of NSP4 is not essential for DMV formation but regulates the DMV numbers. Additionally, the NTD of NSP3 is required for recruiting the RTC component to the cytosolic face of DMVs through direct interaction with NSP12 to assemble ROs. Furthermore, we observed that the size of NSP3/4-induced DMVs is smaller than virus-induced DMVs and established that RTC-mediated synthesis of double-stranded RNA (dsRNA) cargo plays a crucial role in determining DMV size. Collectively, our findings reveal that β-coronaviruses exploit the NSP3/4/12 axis to establish the viral ROs.
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December 31 2024
SARS-CoV-2 NSP3/4 control formation of replication organelle and recruitment of RNA polymerase NSP12
Jinping Yang
,
Jinping Yang
*
(Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Visualization, Writing - original draft, Writing - review & editing)
1Key Laboratory of Molecular Biophysics of the Ministry of Education,
College of Life Science and Technology, Huazhong University of Science and Technology
, Wuhan, China
2
Guangzhou National Laboratory
, Guangzhou, China
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Buyun Tian
,
Buyun Tian
*
(Data curation, Formal analysis, Investigation, Methodology, Visualization, Writing - review & editing)
2
Guangzhou National Laboratory
, Guangzhou, China
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Pei Wang
,
Pei Wang
*
(Investigation, Visualization)
2
Guangzhou National Laboratory
, Guangzhou, China
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Rongrong Chen
,
Rongrong Chen
*
(Formal analysis, Investigation, Project administration, Resources, Supervision, Validation, Visualization, Writing - original draft)
2
Guangzhou National Laboratory
, Guangzhou, China
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Ke Xiao
,
Ke Xiao
(Data curation, Investigation, Visualization, Writing - review & editing)
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
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Xubing Long
,
Xubing Long
(Formal analysis, Methodology)
2
Guangzhou National Laboratory
, Guangzhou, China
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Xinyue Zheng
,
Xinyue Zheng
(Investigation)
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
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Yun Zhu
,
Yun Zhu
(Data curation, Software, Visualization)
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
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Fei Sun
,
Fei Sun
(Supervision)
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
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Yongxia Shi
,
6State Key Laboratory of Respiratory Disease,
Health Quarantine Institute of IQTC, Guangzhou Customs District
, Guangzhou, China
Yongxia Shi: [email protected]
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Yaming Jiu
,
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
5
Unit of Cell Biology and Imaging Study of Pathogen Host Interaction, Key Laboratory of Molecular Virology and Immunology, Shanghai Institute of Immunity and Infection, Chinese Academy of Sciences
, Shanghai, China
Yaming Jiu: [email protected]
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Wei Ji
,
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
Wei Ji: [email protected]
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Yanhong Xue
,
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
Yanhong Xue: [email protected]
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Tao Xu
,
2
Guangzhou National Laboratory
, Guangzhou, China
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
Tao Xu: [email protected]
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Zonghong Li
(Conceptualization, Funding acquisition, Project administration, Supervision, Visualization, Writing - original draft, Writing - review & editing)
2
Guangzhou National Laboratory
, Guangzhou, China
Correspondence to Zonghong Li: [email protected]
Search for other works by this author on:
Jinping Yang
Conceptualization, Data curation, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Resources, Software, Supervision, Validation, Visualization, Writing - original draft, Writing - review & editing
*
1Key Laboratory of Molecular Biophysics of the Ministry of Education,
College of Life Science and Technology, Huazhong University of Science and Technology
, Wuhan, China
2
Guangzhou National Laboratory
, Guangzhou, China
Buyun Tian
Data curation, Formal analysis, Investigation, Methodology, Visualization, Writing - review & editing
*
2
Guangzhou National Laboratory
, Guangzhou, China
2
Guangzhou National Laboratory
, Guangzhou, China
Rongrong Chen
Formal analysis, Investigation, Project administration, Resources, Supervision, Validation, Visualization, Writing - original draft
*
2
Guangzhou National Laboratory
, Guangzhou, China
Ke Xiao
Data curation, Investigation, Visualization, Writing - review & editing
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
Xubing Long
Formal analysis, Methodology
2
Guangzhou National Laboratory
, Guangzhou, China
Xinyue Zheng
Investigation
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
Yun Zhu
Data curation, Software, Visualization
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
Fei Sun
Supervision
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
6State Key Laboratory of Respiratory Disease,
Health Quarantine Institute of IQTC, Guangzhou Customs District
, Guangzhou, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
5
Unit of Cell Biology and Imaging Study of Pathogen Host Interaction, Key Laboratory of Molecular Virology and Immunology, Shanghai Institute of Immunity and Infection, Chinese Academy of Sciences
, Shanghai, China
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
2
Guangzhou National Laboratory
, Guangzhou, China
3National Laboratory of Biomacromolecules,
CAS Center for Excellence in Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences
, Beijing, China
4
College of Life Sciences, University of Chinese Academy of Sciences
, Beijing, China
Correspondence to Zonghong Li: [email protected]
Tao Xu: [email protected]
Yanhong Xue: [email protected]
Wei Ji: [email protected]
Yaming Jiu: [email protected]
Yongxia Shi: [email protected]
*
J. Yang, B. Tian, P. Wang, and R. Chen contributed equally to this paper.
Disclosures: The authors declare no competing interests exist.
Received:
June 26 2023
Revision Received:
October 09 2024
Accepted:
November 25 2024
Online ISSN: 1540-8140
Print ISSN: 0021-9525
Funder(s):
National Natural Science Foundation of China
- Award Id(s): 92469107,92354301,32222022
Funder(s):
R&D Program of Guangzhou Laboratory
- Award Id(s): ZL-SRPG22-002
Funder(s):
Guangdong Province High-level Talent Youth Project
- Award Id(s): 2021QN02Y939
Funder(s):
National Key R&D Program of China
- Award Id(s): 2024YFA1307400
Funder(s):
STI2030-Major Projects
- Award Id(s): 2022ZD0211900
This is a work of the U.S. Government and is not subject to copyright protection in the United States. Foreign copyrights may apply.
2024
This is a work of the U.S. Government and is not subject to copyright protection in the United States. Foreign copyrights may apply.
This article is distributed under the terms of an Attribution–Noncommercial–Share Alike–No Mirror Sites license for the first six months after the publication date (see http://www.rupress.org/terms/). After six months it is available under a Creative Commons License (Attribution–Noncommercial–Share Alike 4.0 International license, as described at https://creativecommons.org/licenses/by-nc-sa/4.0/).
This work is licensed under a
Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License
.
J Cell Biol (2025) 224 (3): e202306101.
Article history
Received:
June 26 2023
Revision Received:
October 09 2024
Accepted:
November 25 2024
Citation
Jinping Yang, Buyun Tian, Pei Wang, Rongrong Chen, Ke Xiao, Xubing Long, Xinyue Zheng, Yun Zhu, Fei Sun, Yongxia Shi, Yaming Jiu, Wei Ji, Yanhong Xue, Tao Xu, Zonghong Li; SARS-CoV-2 NSP3/4 control formation of replication organelle and recruitment of RNA polymerase NSP12. J Cell Biol 3 March 2025; 224 (3): e202306101. doi: https://doi.org/10.1083/jcb.202306101
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