《Nature,2月3日,A new coronavirus associated with human respiratory disease in China》

  • 来源专题:COVID-19科研动态监测
  • 编译者: zhangzx
  • 发布时间:2020-02-04
  • A new coronavirus associated with human respiratory disease in China

    Fan Wu, Su Zhao, Bin Yu, Yan-Mei Chen, Wen Wang, Zhi-Gang Song, Yi Hu, Zhao-Wu Tao, Jun-Hua Tian, Yuan-Yuan Pei, Ming-Li Yuan, Yu-Ling Zhang, Fa-Hui Dai, Yi Liu, Qi-Min Wang, Jiao-Jiao Zheng, Lin Xu, Edward C. Holmes & Yong-Zhen Zhang

    Abstract

    Emerging infectious diseases, such as SARS and Zika, present a major threat to public health1–3. Despite intense research efforts, how, when and where new diseases appear are still the source of considerable uncertainly. A severe respiratory disease was recently reported in the city Wuhan, Hubei province, China. Up to 25th of January 2020, at least 1,975 cases have been reported since the first patient was hospitalized on the 12th of December 2019. Epidemiological investigation suggested that the outbreak was associated with a seafood market in Wuhan. We studied one patient who was a worker at the market, and who was admitted to Wuhan Central Hospital on 26th of December 2019 experiencing a severe respiratory syndrome including fever, dizziness and cough. Metagenomic RNA sequencing4 of a bronchoalveolar lavage fluid sample identified a novel RNA virus from the family Coronaviridae, designed here as WH-Human-1 coronavirus. Phylogenetic analysis of the complete viral genome (29,903 nucleotides) revealed that the virus was most closely related (89.1% nucleotide similarity) to a group of SARS-like coronaviruses (genus Betacoronavirus, subgenus Sarbecovirus) previously sampled from bats in China. This outbreak highlights the ongoing capacity of viral spill-over from animals to cause severe disease in humans.

    Article、Open Access

    Published: 03 February 2020

    This is an unedited manuscript that has been accepted for publication. Nature Research are providing this early version of the manuscript as a service to our customers. The manuscript will undergo copyediting, typesetting and a proof review before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers apply.

  • 原文来源:https://www.nature.com/articles/s41586-020-2008-3
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  • 《Nature,2月3日,A pneumonia outbreak associated with a new coronavirus of probable bat origin》

    • 来源专题:COVID-19科研动态监测
    • 编译者:zhangzx
    • 发布时间:2020-02-03
    • A pneumonia outbreak associated with a new coronavirus of probable bat origin Peng Zhou, Xing-Lou Yang, […]Zheng-Li Shi Abstract Since the SARS outbreak 18 years ago, a large number of severe acute respiratory syndrome-related coronaviruses (SARSr-CoV) have been discovered in their natural reservoir host, bats1–4. Previous studies indicated that some of those bat SARSr-CoVs have the potential to infect humans5–7. Here we report the identification and characterization of a novel coronavirus (2019-nCoV) which caused an epidemic of acute respiratory syndrome in humans in Wuhan, China. The epidemic, which started from 12 December 2019, has caused 2,050 laboratory-confirmed infections with 56 fatal cases by 26 January 2020. Full-length genome sequences were obtained from five patients at the early stage of the outbreak. They are almost identical to each other and share 79.5% sequence identify to SARS-CoV. Furthermore, it was found that 2019-nCoV is 96% identical at the whole-genome level to a bat coronavirus. The pairwise protein sequence analysis of seven conserved non-structural proteins show that this virus belongs to the species of SARSr-CoV. The 2019-nCoV virus was then isolated from the bronchoalveolar lavage fluid of a critically ill patient, which can be neutralized by sera from several patients. Importantly, we have confirmed that this novel CoV uses the same cell entry receptor, ACE2, as SARS-CoV. Article,Open Access,Published: 03 February 2020 This is an unedited manuscript that has been accepted for publication. Nature Research are providing this early version of the manuscript as a service to our customers. The manuscript will undergo copyediting, typesetting and a proof review before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers apply.
  • 《Virologica Sinica,2月14日,The First Disease X is Caused by a Highly Transmissible Acute Respiratory Syndrome Coronavirus》

    • 来源专题:COVID-19科研动态监测
    • 编译者:dingxq
    • 发布时间:2020-02-16
    • The First Disease X is Caused by a Highly Transmissible Acute Respiratory Syndrome Coronavirus Shibo Jiang & Zheng-Li Shi DOI:https://doi.org/10.1007/s12250-020-00206-5 Based on the announcement of the World Health Organization (WHO) in 2018, the Wuhan pneumonia caused by an unknown etiology should be recognized as the first Disease X. Later, the pathogen was identified to be a novel coronavirus denoted 2019-nCoV, which has 79.5% and 96% whole genome sequence identify to SARS-CoV and bat SARS-related coronavirus (SARSr-CoV-RaTG13), respectively, suggesting its potential bat origin. With high human-to-human transmission rate (R0), 2019-nCoV has quickly spread in China and other countries, resulting in 34,953 confirmed cases and 725 deaths as of 8 February 2020, thus calling for urgent development of therapeutics and prophylactics. Here we suggest renaming 2019-nCoV as “transmissible acute respiratory syndrome coronavirus (TARS-CoV)” and briefly review the advancement of research and development of neutralizing antibodies and vaccines targeting the receptor-binding domain (RBD) and viral fusion inhibitors targeting the heptad repeat 1 (HR1) domain in spike protein of 2019-nCoV. On February 9, 2018, the World Health Organization (WHO) announced the Blueprint list of priority diseases, including Middle East respiratory syndrome (MERS) and Severe Acute Respiratory Syndrome (SARS), as well as Disease X, for research and development in emergency contexts. Disease X would be a new disease with an epidemic or pandemic potential caused by an unknown pathogen (www.who.int/activities/prioritizing-diseases-for-research-and-development-in-emergency-context). At that time, we believed that the first Disease X could be a transmissible infectious disease caused by a novel coronavirus originated from bats. This supposition was based on a live SARS-related coronavirus (SARSr-CoV), designated SARSr-CoV-WIV1, isolated from bat fecal samples in Vero E6 cells. It had 99.9% whole genome sequence identity to that of SARSr-CoV-Rs3367 identified from Chinese horseshoe bats and another novel strain, SARSr-CoV-RsSHC014, both of which could utilize human, civet and Chinese horseshoe bat angiotensin converting enzyme II (ACE2) as the host cell receptor for infecting human, civet and Chinese horseshoe bat target cells (Ge et al. 2013; Cui et al. 2019). This evidence prompted us to accelerate our efforts to develop viral fusion inhibitors and neutralizing antibodies with broad-spectrum inhibitory activity against divergent human coronaviruses and SARSr-CoVs (Zeng et al.2017; Xia et al. 2019). On 31 December 2019, the Wuhan Municipal Health Commission reported that 27 cases of unexplained pneumonia linked to the wholesale Huanan Seafood Market in Wuhan had been identified and hospitalized. By then, the investigation had not found significant human-to-human transmission and no medical personnel infected (www.sciencemag.org/news/2020/01/novel-human-virus-pneumonia-cases-linked-seafood-market-china-stir-concern). Based on the announcement of the World Health Organization, as noted above, the Wuhan pneumonia caused by an unknown etiology should be recognized as the first Disease X. Soon after that, the pathogen causing Wuhan pneumonia was identified as a novel coronavirus, denoted 2019-nCoV by WHO (https://www.who.int/emergencies/diseases/novel-coronavirus-2019), with 79.5% and 96% whole genome sequence identity to SARS-CoV and bat coronavirus SARSr-CoV-RaTG13, respectively, suggesting 2019-nCoV’s potential bat origin (Zhou et al. 2020). However, no name for the pneumonia caused by 2019-nCoV infection has been provided by WHO or by the International Committee on Taxonomy of Viruses (ICTV) so far. Accordingly, some researchers decided to denote this novel coronavirus as “novel coronavirus-infected pneumonia (NCIP)” in their publication (Li et al. 2020). However, in the generally accepted lexicon, one would then have to write “novel coronavirus-infected pneumonia coronavirus (NCIP-CoV)”, which could be an awkward construct. Most reporters and media are still calling it “Wuhan pneumonia”, but this terminology is detrimental to Wuhanese already facing lockdown and economic loss. The obvious dilemmas call for a renaming of the disease and virus causing the disease, one that is both lexicographically and taxonomically appropriate (news.ifeng.com/c/7tf2GFqwL4a). Jiang and colleagues recently suggested renaming NCIP as “pneumonia-associated respiratory syndrome (PARS)” and 2019-nCoV as “PARS coronavirus (PARS-CoV)” (Jiang et al.2020a, b) in order to retain terminology equivalent to that of SARS-CoV, which was based on the facts that (1) the novel coronavirus causing the pneumonia outbreak in Wuhan is rapidly becoming well known worldwide, (2) most patients suffer from pneumonia, (3) the pneumonia caused by 2019-nCoV is much less severe than that caused by SARS-CoV, and (4) the case-fatality rate (CFR) of patients with 2019-nCoV infection is much lower than that of individuals with SARS-CoV infection. However, several experts in the coronavirus field have expressed their concern that the term PARS seems to exclude associated respiratory syndrome arising from other etiologies of pneumonia. Therefore, we herein propose the following alternative terminology: “transmissible acute respiratory syndrome (TARS)” and “TARS-CoV” for the virus, similar to SARS-CoV, since 2019-nCoV is one of the most transmissible coronaviruses identified so far. Although the estimated R0 (~ 2.6) of 2019-nCoV (Zhao et al.2020) is generally in line with that of SARS (R0: 2–5), it is much higher than that of MERS (R0: < 1) (Chen et al.2020). In addition, the number of 2019-nCoV-infected patients via human-to-human transmission is at least 3- and 10-fold higher than that of SARS-CoV- and MERS-CoV-infected patients, respectively. On 5 February 2020, the New Coronavirus Infection Pneumonia Diagnosis and Treatment Plan (trial version 5) published by the National Health Commission of the People’s Republic of China indicated that the routes of transmission via aerosols and digestive tract were also possible, even though 2019-nCoV is, thus far, known to be primarily transmitted through respiratory droplets and contacts (m.chinanews.com/wap/detail/sp/sp/shipin/cns/2020/02-05/news9080314.shtml), rendering the virus even more transmissible or infectious. Please be aware that WHO may not take our suggestion and ICTV should make the final decision about renaming 2019-nCoV, as they did for naming MERS-CoV in 2013 (de Groot et al. 2013). As of 8 February, 34,953 confirmed cases of 2019-nCoV infection and 725 deaths have been reported in China and 24 other countries (http://en.nhc.gov.cn/2020-02/08/c_76358.htm). This outbreak of 2019-nCoV infection has posed a serious threat to global public health, thus calling for the development of therapeutic and prophylactic strategies (Jiang et al.2020a, b). Based on the previous experience in the research and development of virus fusion inhibitors against HIV, SARS-CoV, and MERS-CoV (Jiang et al.1993; Liu et al. 2004; Lu et al. 2014), Jiang and colleagues have recently developed a pan-CoV fusion inhibitor, EK1 peptide, with potent inhibitory activity against infection by 5 human coronaviruses tested, including SARS-CoV, MERS-CoV, and 3 bat-SARSr-CoVs (Xia et al. 2019). EK1 peptide could protect hDPP4-transgenic mice or regular mice treated with EK1 via intranasal application before or after challenge with MERS-CoV or hCoV-OC43, respectively. Most recently, Jiang and colleagues showed that EK1 peptide and the peptide derived from the HR2 domain in spike (S) protein of 2019-nCoV (2019-nCoV-HR2P) could effectively inhibit 2019-nCoV pseudovirus infection and S protein-mediated cell–cell fusion (Xia et al. 2020), indicating that either EK1 or 2019-nCoV-HR2P could be promising candidates to be developed for prevention and treatment of infection by 2019-nCoV, SARS-CoV, and possibly other emerging and reemerging coronaviruses in the future. Jiang and colleagues have previously shown that the receptor-binding domain (RBD) in S protein of SARS-CoV contains at least 6 conformation-dependent neutralizing epitopes that can induce potent neutralizing antibody response and protection of immunized animals against SARS-CoV infection (Du et al.2009, 2016). Interestingly, we have previously demonstrated that antibodies induced by SARS-CoV S-RBD could cross-neutralize infection by bat SARSr-CoVs, including bat-SARSr-CoV-W1V1 and bat-SARSr-CoV-SHC014 (Zeng et al.2017). Most recently, we have shown that one SARS-CoV S-RBD-specific monoclonal antibody, CR3022, could potently bind with 2019-nCoV S-RBD, using different probative assays (Tian et al.2020). These results suggest that the SARS-CoV S-RBD-based vaccine candidate should be tested for its in vitro and in vivo efficacy in inducing neutralizing antibody responses and protection of animals against 2019-nCoV infection. If it works, the already developed RBD-based anti-SARS vaccine candidate has sufficient potential to go to clinical studies for the prevention of 2019-nCoV infection.