Nipah virus vector sequences in COVID-19 patient samples sequenced by the Wuhan Institute of Virology

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1. Très proche Cité par cet article Une méthode qu’il utilise Pas pertinent

   Phylogeography, Transmission, and Viral Proteins of Nipah Virus

   B. Sun, Lijia Jia, Biling Liang et al. · 2018 · Virologica Sinica · cité 76 fois · Pas encore résumé

   Résumé scientifique

   Nipah virus (NiV), a zoonotic paramyxovirus belonging to the genus Henipavirus, is classified as a Biosafety Level-4 pathogen based on its high pathogenicity in humans and the lack of available vaccines or therapeutics. Since its initial emergence in 1998 in Malaysia, this virus has become a great threat to domestic animals and humans. Sporadic outbreaks and person-to-person transmission over the past two decades have resulted in hundreds of human fatalities. Epidemiological surveys have shown that NiV is distributed in Asia, Africa, and the South Pacific Ocean, and is transmitted by its natural reservoir, Pteropid bats. Numerous efforts have been made to analyze viral protein function and s…

2. Très proche Cité par cet article Pas pertinent

   There was a simultaneous outbreak of the zoonotic Nipah henipavirus in Wuhan - 4 out of 5 patients have the virus in Jinyintan Hospital , along with SARS-Cov2, in their metagenome - which seems to have resolved by itself

   S. Chakraborty · 2020 · cité 1 fois · Pas encore résumé

   Résumé scientifique

   ‘Nipah virus is a biosafety level 4 (BSL-4) pathogen that causes severe respiratory illness and encephalitis in humans’ [1] that orginates in bats [2]. It was first isolated in Malaysia and Singapore in 1999 - ‘late September 1998 and by mid-June 1999, more than 265 encephalitis cases, including 105 deaths, had been reported in Malaysia, and 11 cases of encephalitis or respiratory illness with one death had been reported in Singapore’ [3]. It keeps recurring in Bangladesh [4]. There was a 2018 outbreak in Kerala, India [5]. There seems to have been a simultaneous outbreak in Wuhan during Covid19 - which never got reported, and apparently resolved by itself.Metagenome from the bronchoalveolar…

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   Isolation and Full-Genome Characterization of Nipah Viruses from Bats, Bangladesh

   D. Anderson, Ariful Islam, G. Crameri et al. · 2019 · Emerging Infectious Diseases · cité 56 fois · Pas encore résumé

   Résumé scientifique

   Despite molecular and serologic evidence of Nipah virus in bats from various locations, attempts to isolate live virus have been largely unsuccessful. We report isolation and full-genome characterization of 10 Nipah virus isolates from Pteropus medius bats sampled in Bangladesh during 2013 and 2014.

4. Proche Cité par cet article Pas pertinent

   Nipah virus dynamics in bats and implications for spillover to humans

   J. Epstein, S. Anthony, A. Islam et al. · 2020 · Proceedings of the National Academy of Sciences of the United States of America · cité 235 fois · Pas encore résumé

   Résumé scientifique

   Significance Nipah virus (NiV) is a zoonotic virus and World Health Organization (WHO) priority pathogen that causes near-annual outbreaks in Bangladesh and India with >75% mortality. This work advances our understanding of transmission of NiV in its natural bat reservoir by analyzing data from a 6-y multidisciplinary study of serology, viral phylogenetics, bat ecology, and immunology. We show that outbreaks in Pteropus bats are driven by increased population density, loss of immunity over time, and viral recrudescence, resulting in multiyear interepizootic periods. Incidence is low, but bats carry NiV across Bangladesh and can shed virus at any time of year, highlighting the importance of r…

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   Rapid and Specific Detection of All Known Nipah virus Strains’ Sequences With Reverse Transcription-Loop-Mediated Isothermal Amplification

   Li-Ping Ma, Zhen Chen, W. Guan et al. · 2019 · Frontiers in Microbiology · cité 34 fois · Pas encore résumé

   Résumé scientifique

   Nipah virus (NiV) is a zoonotic virus and can be transmitted through contaminated food or directly between people. NiV is classified as a Biosafety Level 4 agent, not only because of its relatively high case fatality rate, but also because there is no vaccine or other medical countermeasures and it appears to be transmitted by fomites/particulates. The development of rapid detection assay for NiV is of great importance because no effective field test is currently available. In this study, an isothermal (65°C) reverse transcription-loop-mediated isothermal amplification (RT-LAMP) method was developed, targeting the nucleocapsid protein (N) gene, for the rapid detection of NiV, and was compare…

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   A neutralization test for specific detection of Nipah virus antibodies using pseudotyped vesicular stomatitis virus expressing green fluorescent protein

   Yoshihiro Kaku, Akira Noguchi, Glenn A. Marsh et al. · 2009 · Journal of Virological Methods · cité 71 fois · Pas encore résumé

   Résumé scientifique

   Nipah virus (NiV) is a new zoonotic paramyxovirus that emerged in 1998 and is now classified in the genus Henipavirus along with the closely related Hendra virus (HeV). NiV is highly pathogenic in several vertebrate species including humans, and the lack of available vaccines or specific treatment restricts it to biosafety level 4 (BSL4) containment. A serum neutralization test was developed for measuring NiV neutralizing antibodies under BSL2 conditions using a recombinant vesicular stomatitis virus (VSV) expressing green fluorescent protein (GFP) and bearing the F and G proteins of NiV (VSV–NiV–GFP). The neutralization titers were obtained by counting GFP-expressing cells or by measuring f…

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   Nipah pseudovirus system enables evaluation of vaccines in vitro and in vivo using non-BSL-4 facilities

   Jian-Hui Nie, Lin Liu, Qing Wang et al. · 2019 · Emerging Microbes and Infections · cité 49 fois · Pas encore résumé

   Résumé scientifique

   ABSTRACT Because of its high infectivity in humans and the lack of effective vaccines, Nipah virus is classified as a category C agent and handling has to be performed under biosafety level 4 conditions in non-endemic countries, which has hindered the development of vaccines. Based on a highly efficient pseudovirus production system using a modified HIV backbone vector, a pseudovirus-based mouse model has been developed for evaluating the efficacy of Nipah vaccines in biosafety level 2 facilities. For the first time, the correlates of protection have been identified in a mouse model. The limited levels of neutralizing antibodies against immunogens fusion protein (F), glycoprotein (G), and co…

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   Nipah Virus Infection

   B. Ang, Tchoyoson Lim, L. Wang · 2018 · Journal of Clinical Microbiology · cité 323 fois · Pas encore résumé

   Résumé scientifique

   ABSTRACT Nipah virus, a paramyxovirus related to Hendra virus, first emerged in Malaysia in 1998. Clinical presentation ranges from asymptomatic infection to fatal encephalitis. Malaysia has had no more cases since 1999, but outbreaks continue to occur in Bangladesh and India. In the Malaysia-Singapore outbreak, transmission occurred primarily through contact with pigs, whereas in Bangladesh and India, it is associated with ingestion of contaminated date palm sap and human-to-human transmission. Bats are the main reservoir for this virus, which can cause disease in humans and animals. There are currently no effective therapeutics, and supportive care and prevention are the mainstays of manag…

Les travaux antérieurs sur lesquels il s’appuie

1. Proche Pas pertinent

   Targeted Strategies for Henipavirus Therapeutics

   Katharine N. Bossart, J. Bingham, D. Middleton · 2007 · Open Virology Journal · cité 17 fois · Pas encore résumé

   Résumé scientifique

   Hendra and Nipah viruses are related emergent paramyxoviruses that infect and cause disease in animals and humans. Disease manifests as a generalized vasculitis affecting multiple organs, but is the most severe in the respiratory and central nervous systems. The high case fatality and person-to-person transmission associated with the most recent NiV outbreaks, and the recent re-emergence of HeV, emphasize the importance and necessity of effective therapeutics for these novel agents. In recent years henipavirus research has revealed a more complete understanding of pathogenesis and, as a consequence, viable approaches towards vaccines and therapeutics have emerged. All strategies target early…

2. Proche* Pas pertinent

   CONTAMINATION OR VACCINE RESEARCH? RNA Sequencing data of early COVID-19 patient samples show abnormal presence of vectorized H7N9 hemagglutinin segment

   S. Quay, Monali C. Rahalkar, Adrian Jones et al. · 2021 · cité 4 fois · Pas encore résumé
3. Proche Pas pertinent

   Non-SARS-CoV-2 genome sequences identified in clinical samples from COVID-19 infected patients: Evidence for co-infections

   M. Abouelkhair · 2020 · PeerJ · cité 12 fois · Pas encore résumé

   Résumé scientifique

   Background In December 2019, an ongoing outbreak of pneumonia caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2/ 2019-nCoV) infection was initially reported in Wuhan, Hubei Province, China. Early in 2020, the World Health Organization (WHO) announced a new name for the 2019-nCoV-caused disease: coronavirus disease 2019 (COVID-19) and declared COVID-19 to be a Public Health Emergency of International Concern (PHEIC). Cellular co-infection is a critical determinant of viral fitness and infection outcomes and plays a crucial role in shaping the host immune response to infections. Methods In this study, 68 public next-generation sequencing data from SARS-CoV-2 infected patien…

4. Proche Pas pertinent

   Unexpected novel Merbecovirus discoveries in agricultural sequencing datasets from Wuhan, China

   Dao-Yu Zhang, Adrian Jones, Yuri Deigin et al. · 2021 · cité 6 fois · Pas encore résumé

   Résumé scientifique

   In this study we document the unexpected discovery of multiple coronaviruses and a BSL-3 pathogen in agricultural cotton and rice sequencing datasets. In particular, we have identified a novel HKU5-related Merbecovirus in a cotton dataset sequenced by the Huazhong Agricultural University in 2017. We have also found an infectious clone sequence containing a novel HKU4-related Merbecovirus related to MERS coronavirus in a rice dataset sequenced by the Huazhong Agricultural University in early 2020. Another HKU5-related Merbecovirus, as well as Japanese encephalitis virus, were identified in a cotton dataset sequenced by the Huazhong Agricultural University in 2018. An HKU3-related Betacoronavi…

5. Apparenté* Pas pertinent

   Nipah Virus Envelope-Pseudotyped Lentiviruses Efficiently Target ephrinB2-Positive Stem Cell Populations In Vitro and Bypass the Liver Sink When Administered In Vivo

   Karina Palomares, F. Vigant, B. van Handel et al. · 2012 · Journal of Virology · cité 46 fois · Pas encore résumé

Les articles qui le citent

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   Forensic Analysis of Novel SARS2r-CoV Identified in Game Animal Datasets in China Shows Evolutionary Relationship to Pangolin GX CoV Clade and Apparent Genetic Experimentation

   Adrian Jones, S. Massey, Dao-Yu Zhang et al. · 2022 · Applied microbiology · cité 3 fois · Pas encore résumé

   Résumé scientifique

   Pangolins are the only animals other than bats proposed to have been infected with SARS-CoV-2 related coronaviruses (SARS2r-CoVs) prior to the COVID-19 pandemic. Here, we examine the novel SARS2r-CoV we previously identified in game animal metatranscriptomic datasets sequenced by the Nanjing Agricultural University in 2022, and find that sections of the partial genome phylogenetically group with Guangxi pangolin CoVs (GX PCoVs), while the full RdRp sequence groups with bat-SL-CoVZC45. While the novel SARS2r-CoV is found in 6 pangolin datasets, it is also found in 10 additional NGS datasets from 5 separate mammalian species and is likely related to contamination by a laboratory researched vir…

2. Proche Pas pertinent

   Further analysis of metagenomic datasets containing GD and GX pangolin CoVs indicates widespread contamination, undermining pangolin host attribution (preprint)

   Adrian Jones, S. Massey, Dao-Yu Zhang et al. · 2022 · cité 2 fois · Pas encore résumé

   Résumé scientifique

   The only animals other than bats reported to have been infected with SARS-CoV-2-related coronaviruses (SARS2r-CoVs) prior to the COVID-19 pandemic are pangolins. In early 2020 multiple papers reported the identification of two clades of SARS2r-CoVs, GD and GX, infecting pangolins. However the RNA-Seq datasets supporting pangolin genome assembly were widely contaminated, contained synthetic vectors or were heavily enriched or filtered with little but coronavirus sequences left in the datasets. Here we investigate two pangolin fecal samples sequenced by Li et al. (2021) provided in support of GD PCoV infection of pangolins in Guangdong and find the read distribution consistent with PCR amplico…

3. Proche Pas pertinent

   Discovery of a novel merbecovirus DNA clone contaminating agricultural rice sequencing datasets from Wuhan, China

   Adrian Jones, Dao-Yu Zhang, S. Massey et al. · 2023 · bioRxiv · preprint, non relu par les pairs · cité 1 fois · Pas encore résumé

   Résumé scientifique

   HKU4-related coronaviruses are a group of betacoronaviruses belonging to the same merbecovirus subgenus as Middle Eastern Respiratory Syndrome coronavirus (MERS-CoV), which causes severe respiratory illness in humans with a mortality rate of over 30%. The high genetic similarity between HKU4-related coronaviruses and MERS-CoV makes them an attractive subject of research for modeling potential zoonotic spillover scenarios. In this study, we identify a novel coronavirus contaminating agricultural rice RNA sequencing datasets from Wuhan, China. The datasets were generated by the Huazhong Agricultural University in early 2020. We were able to assemble the complete viral genome sequence, which re…

4. Proche Pas pertinent

   Analysis of pangolin metagenomic datasets reveals significant contamination, raising concerns for pangolin CoV host attribution (preprint)

   Adrian Jones, Dao-Yu Zhang, Yuri Deigin et al. · 2021 · cité 2 fois · Pas encore résumé

   Résumé scientifique

   Metagenomic datasets from pangolin tissue specimens have previously yielded SARS-related coronaviruses which show high homology in their receptor binding domain to SARS-CoV-2, suggesting a potential zoonotic source for this feature of the human virus, possibly via recombination (Liu et al. 2019, Lam et al. 2020, Xiao et al. 2020, Liu et al. 2020). Here we re-examine these published datasets. We report that only a few pangolin samples were found to contain coronavirus reads, and even then in low abundance, while other non-pangolin hosted viruses were present in higher abundance. We also discovered extensive contamination with human, rodent, and other mammalian gene sequences, which was a surp…

5. Apparenté* Pas pertinent

   Identification of a novel HKU4-related coronavirus in single-cell datasets and clade viral host analysis

   Adrian Jones, S. Massey, Louis R. Nemzer et al. · 2023 · bioRxiv · preprint, non relu par les pairs · Pas encore résumé