Corpus overview


Overview

MeSH Disease

Human Phenotype

Pneumonia (1049)

Fever (651)

Cough (525)

Hypertension (362)

Anxiety (286)


Transmission

age categories (2647)

Transmission (2432)

gender (1227)

fomite (1108)

contact tracing (876)


Seroprevalence
    displaying 12411 - 12420 records in total 12932
    records per page




    Rapid metagenomic characterization of a case of imported COVID-19 in Cambodia

    Authors: Jessica E Manning; Jennifer A Bohl; Sreyngim Lay; Sophana Chea; Sovann Ly; Yi Sengdoeurn; Seng Heng; Chan Vuthy; Katarina Kalantar; Vida Ahyong; Michelle Tan; Jonathan Sheu; Christina M Tato; Joseph DeRisi; Laurence Baril; Philippe Dussart; Veasna Duong; Erik A Karlsson

    doi:10.1101/2020.03.02.968818 Date: 2020-03-05 Source: bioRxiv

    Rapid production and publication of pathogen genome sequences during emerging disease MESHD outbreaks provide crucial public health information. In resource-limited settings, especially near an outbreak epicenter, conventional deep sequencing or bioinformatics are often challenging. Here we successfully used metagenomic next generation sequencing on an iSeq100 Illumina platform paired with an open-source bioinformatics pipeline to quickly characterize Cambodias first case of COVID-2019.

    Susceptibility Analysis of COVID-19 in Smokers Based on ACE2

    Authors: Jin Wang; Qiulin Luo; Rui Chen; Tao Chen; Jianxiang Li

    id:10.20944/preprints202003.0078.v1 Date: 2020-03-05 Source: preprints.org

    Background: Cigarette smoking (CS) is a global public health problem and a high-risk factor for various diseases MESHD. In December 2019, a novel coronavirus (HCoV-19) was identified in Wuhan, China. Because ACE2 has been identified as a receptor for HCoV-19, we hypothesize that CS affects the expression pattern of ACE2 in respiratory tract, causing differences in susceptibility to the virus. Methods: Three datasets (GSE994, GSE17913, and GSE18344), were downloaded from the Gene Expression Omnibus (GEO) database. Correlation and enrichment analysis were used to evaluate the function of ACE2. Also, the different expression of ACE2 in different groups of three datasets were analyzed. Results: Genes associated with ACE2 were enriched in important biological processes such as viral processes and immune response. Elevated ACE2 were found in intrapulmonary airways (GSE994) and oral epithelial cells (GSE17913) of smokers but not those of non-smokers or former smokers. Significant dose- and time-dependent relationships between CS and ACE2 expression were observed in mouse lung tissues, and long periods without smoking were found to significantly reduce ACE2 expression. Conclusions: Both human and rat data confirmed that CS could induce increased ACE2 in the respiratory tract, indicating that smokers have a higher susceptibility to HCoV-19.

    Monitoring Disease MESHD Transmissibility TRANS of 2019 Novel Coronavirus Disease MESHD in Zhejiang, China

    Authors: Ka Chun Chong; Wei Cheng; Shi Zhao; Feng Ling; Kirran N Mohammad; Maggie Haitian Wang; Benny Chung-ying Zee; Lesley Wei; Xi Xiong; Hengyan Liu; Jingxuan Wang; Enfu Chen

    doi:10.1101/2020.03.02.20028704 Date: 2020-03-05 Source: medRxiv

    We monitored the transmissibility TRANS of 2019 novel coronavirus disease MESHD in Zhejiang accounting the transmissions TRANS from imported cases. Even though Zhejiang is one of the worst-affected provinces, an interruption of disease MESHD transmission TRANS (i.e. instantaneous reproduction numbers TRANS <1) was observed in early/mid-February after an early social-distancing response to the outbreak.

    Predicting the Angiotensin Converting Enzyme 2 (ACE2) Utilizing Capability as the Receptor of SARS-CoV-2

    Authors: Ye Qiu; Yuan-Bo Zhao; Qiong Wang; Jin-Yan Li; Zhi-JIan ZHou; Ce-Heng Liao; Xing-Yi Ge

    id:10.20944/preprints202003.0091.v1 Date: 2020-03-05 Source: preprints.org

    SARS-CoV-2, the newly identified human coronavirus causing severe pneumonia MESHD pneumonia HP epidemic, was probably originated from Chinese horseshoe bats. However, direct transmission TRANS of the virus from bats to humans is unlikely due to lack of direct contact, implying the existence of unknown intermediate hosts. Angiotensin converting enzyme 2 (ACE2) is the receptor of SARS-CoV-2, but only ACE2s of certain species can be utilized by SARS-CoV-2. Here, we evaluated and ranked the receptor-utilizing capability of ACE2s from various species by phylogenetic clustering and sequence alignment with the currently known ACE2s utilized by SARS-CoV-2, predicting potential intermediate hosts of SARS-CoV-2.

    A novel bat coronavirus reveals natural insertions at the S1/S2 cleavage site of the Spike protein and a possible recombinant origin of HCoV-19

    Authors: Hong Zhou; Xing Chen; Tao Hu; Juan Li; Hao Song; Yanran Liu; Peihan Wang; Di Liu; Jing Yang; Edward C. Holmes; Alice C. Hughes; Yuhai Bi; Weifeng Shi

    doi:10.1101/2020.03.02.974139 Date: 2020-03-05 Source: bioRxiv

    The unprecedented epidemic of pneumonia MESHD pneumonia HP caused by a novel coronavirus, HCoV-19, in China and beyond has caused public health concern at a global scale. Although bats are regarded as the most likely natural hosts for HCoV-191,2, the origins of the virus remain unclear. Here, we report a novel bat-derived coronavirus, denoted RmYN02, identified from a metagenomics analysis of samples from 227 bats collected from Yunnan Province in China between May and October, 2019. RmYN02 shared 93.3% nucleotide identity with HCoV-19 at the scale of the complete virus genome and 97.2% identity in the 1ab gene in which it was the closest relative TRANS of HCoV-19. In contrast, RmYN02 showed low sequence identity (61.3%) to HCoV-19 in the receptor binding domain (RBD) and might not bind to angiotensin-converting enzyme 2 (ACE2). Critically, however, and in a similar manner to HCoV-19, RmYN02 was characterized by the insertion of multiple amino acids at the junction site of the S1 and S2 subunits of the Spike (S) protein. This provides strong evidence that such insertion events can occur in nature. Together, these data suggest that HCoV-19 originated from multiple naturally occurring recombination events among those viruses present in bats and other wildlife species.

    From plague MESHD to coronavirus: On the value of ship traffic data for epidemic modeling

    Authors: Katherine Hoffmann Pham; Miguel Luengo-Oroz

    id:2003.02253v1 Date: 2020-03-04 Source: arXiv

    In addition to moving people and goods, ships can spread disease TRANS disease MESHD. Ship traffic may complement air traffic as a source of import risk, and cruise ships - with large passenger volumes and multiple stops - are potential hotspots, in particular for diseases MESHD with long incubation periods TRANS. Vessel trajectory data from ship Automatic Identification Systems (AIS) is available online and it is possible to extract and analyze this data. We illustrate this in the case of the current coronavirus epidemic, in which hundreds of infected individuals have traveled TRANS in ships captured in the AIS dataset. This real time and historical data should be included in epidemiological models of disease MESHD to inform the corresponding operational response.

    Epidemiology and Transmission TRANS of COVID-19 in Shenzhen China: Analysis of 391 cases and 1,286 of their close contacts TRANS

    Authors: Qifang Bi; Yongsheng Wu; Shujiang Mei; Chenfei Ye; Xuan Zou; Zhen Zhang; Xiaojian Liu; Lan Wei; Shaun A Truelove; Tong Zhang; Wei Gao; Cong Cheng; Xiujuan Tang; Xiaoliang Wu; Yu Wu; Binbin Sun; Suli Huang; Yu Sun; Juncen Zhang; Ting Ma; Justin Lessler; Teijian Feng

    doi:10.1101/2020.03.03.20028423 Date: 2020-03-04 Source: medRxiv

    Background Rapid spread of SARS-CoV-2 in Wuhan prompted heightened surveillance in Shenzhen and elsewhere in China. The resulting data provide a rare opportunity to measure key metrics of disease MESHD course, transmission TRANS, and the impact of control. Methods The Shenzhen CDC identified 391 SARS-CoV-2 cases from January 14 to February 12, 2020 and 1286 close contacts TRANS. We compare cases identified through symptomatic surveillance and contact tracing TRANS, and estimate the time from symptom onset TRANS to confirmation, isolation, and hospitalization. We estimate metrics of disease MESHD transmission TRANS and analyze factors influencing transmission risk TRANS. Findings Cases were older than the general population (mean age TRANS 45) and balanced between males TRANS (187) and females TRANS (204). Ninety-one percent had mild or moderate clinical severity at initial assessment. Three have died, 225 have recovered (median time to recovery TRANS is 21 days). Cases were isolated on average 4.6 days after developing symptoms; contact tracing TRANS reduced this by 1.9 days. Household contacts TRANS and those travelling with a case TRANS where at higher risk of infection TRANS risk of infection TRANS infection MESHD (ORs 6 and 7) than other close contacts TRANS. The household secondary attack rate TRANS was 15%, and children TRANS were as likely to be infected as adults TRANS. The observed reproductive number TRANS was 0.4, with a mean serial interval TRANS of 6.3 days. Interpretation Our data on cases as well as their infected and uninfected close contacts TRANS provide key insights into SARS-CoV-2 epidemiology. This work shows that heightened surveillance and isolation, particularly contact tracing TRANS, reduces the time cases are infectious in the community, thereby reducing R. Its overall impact, however, is uncertain and highly dependent on the number of asymptomatic TRANS cases. We further show that children TRANS are at similar risk of infection TRANS risk of infection TRANS infection MESHD as the general population, though less likely to have severe symptoms; hence should be considered in analyses of transmission TRANS and control.

    Potential for Developing a SARS-CoV Receptor Binding Domain (RBD) Recombinant Protein as a Heterologous Human Vaccine against Coronavirus Infectious Disease MESHD (COVID)-19

    Authors: Wen-Hsiang Chen; Peter J. Hotez; Maria Elena Bottazzi

    id:202002.0449/v2 Date: 2020-03-04 Source: preprints.org

    A SARS-CoV receptor-binding domain (RBD) recombinant protein was developed and manufactured under current good manufacturing practices in 2016. The protein known as RBD219-N1 when formulated on Alhydrogel®, induced high-level neutralizing antibodies SERO and protective immunity with minimal immunopathology in mice after a homologous virus challenge with SARS-CoV (MA15 strain). In this report, we examined published evidence in support of whether the SARS-CoV RBD219-N1 could be repurposed as a heterologous vaccine against Coronavirus Infectious Disease MESHD (COVID)-19. Our findings include evidence that convalescent serum SERO from SARS-CoV patients can neutralize SARS-CoV-2. Additionally, a review of published studies using monoclonal antibodies SERO (mAbs) raised against SARS-CoV RBD and that neutralize the SARS-CoV virus in vitro, finds that some of these mAbs bind to the receptor-binding motif (RBM) within the RBD, while others bind to domains outside this region within RBD. This information is relevant and supports the possibility of developing a heterologous SARS-CoV RBD vaccine against COVID-19, especially due to the finding that the overall high amino acid similarity (82%) between SARS-CoV and SARS-CoV-2 spike and RBD domains is not reflected in RBM region (59%). However, the high similarity (94%) in the region outside of RBM offers the potential of conserved neutralizing epitopes between both viruses.

    Data analysis for the COVID-19 early dynamics in Northern Italy

    Authors: Giuseppe Gaeta

    id:2003.02062v2 Date: 2020-03-04 Source: arXiv

    The COVID-19 epidemics, started in China in January 2020, was recognized to have reached Italy around February 20; recent estimates show that most probably the virus circulated in the country already in January, but was not recognized. Data for the early dynamics of COVID-19 in Northern Italy are analyzed.

    Clinical course and outcome of 107 patients infected with the novel coronavirus, SARS-CoV-2, discharged from two hospitals in Wuhan, China.

    Authors: Dawei Wang; Yimei Yin; Chang Hu; Xing Liu; Xingguo Zhang; Shuliang Zhou; Mingzhi Jian; Haibo Xu; John Prowle; Bo Hu; Yirong Li; Zhi-Yong Peng

    doi:10.21203/rs.3.rs-16485/v2 Date: 2020-03-04 Source: ResearchSquare

    Background In December 2019, Coronavirus Disease MESHD 2019 (COVID-19) outbreak was reported from Wuhan, China. Information on the clinical course and prognosis of COVID-19 was not thoroughly described. We described the clinical courses and prognosis in COVID-19 patients. Methods Retrospective case series of COVID-19 patients from Zhongnan Hospital of Wuhan University in Wuhan, and Xi-shui Hospital, Hubei Province, China, up to February 10, 2020. Epidemiological, demographic and clinical data were collected. Clinical course of survivors and non-survivors were compared. Risk factors for death MESHD were analyzed. Results A total of 107 discharged patients with COVID-19 were enrolled. The clinical course of COVID-19 presented as a tri-phasic pattern. Week 1 after illness onset was characterized by fever MESHD fever HP, cough MESHD cough HP, dyspnea MESHD dyspnea HP, lymphopenia MESHD lymphopenia HP and radiological multilobar pulmonary infiltrates HP. In severe cases, thrombocytopenia MESHD thrombocytopenia HP, acute kidney injury MESHD acute kidney injury HP, acute myocardial injury or adult respiratory distress syndrome MESHD adult TRANS respiratory distress HP syndrome were observed. During week 2, in mild cases, fever MESHD fever HP, cough MESHD cough HP and systemic symptoms began to resolve and platelet count rose to normal range, but lymphopenia MESHD lymphopenia HP persisted. In severe cases, leukocytosis MESHD leukocytosis HP, neutrophilia HP and deteriorating multi-organ dysfunction were dominant. By week 3, mild cases had clinically resolved except for lymphopenia MESHD lymphopenia HP. However, severe cases showed persistent lymphopenia MESHD lymphopenia HP, severe acute respiratory dyspnea MESHD dyspnea HP syndrome MESHD , refractory shock MESHD shock HP, anuric acute kidney injury MESHD acute kidney injury HP, coagulopathy, thrombocytopenia MESHD thrombocytopenia HP and death MESHD. Older age TRANS and male TRANS sex were independent risk factors for poor outcome of the illness. Conclusions A period of 7–13 days after illness onset is the critical stage in COVID-19 course. Age TRANS and male TRANS gender TRANS were independent risk factors for death MESHD of COVID-19.

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MeSH Disease
Human Phenotype
Transmission
Seroprevalence


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