        item: #1 of 41
          id: cord-003573-ekxq4l9a
      author: Yao, Yanfeng
       title: Protection against homo and hetero-subtypic inﬂuenza A virus by optimized M2e DNA vaccine
        date: 2019-01-16
       words: 5348
      flesch: 48
     summary: Influenza vaccine viruses and reagents Identification of a second protein (M2) encoded by RNA segment 7 of influenza virus Influenza virus M2 protein has ion channel activity A distinct lineage of influenza A virus from bats A universal influenza A vaccine based on the extracellular domain of the M2 protein Virus-like particles containing multiple M2 extracellular domains confer improved cross-protection against various subtypes of influenza virus An influenza A vaccine based on tetrameric ectodomain of matrix protein 2 CTA1-M2e-DD: a novel mucosal adjuvant targeted influenza vaccine Safety and immunogenicity of a recombinant M2e-flagellin influenza vaccine (STF2.4xM2e) in healthy adults Synthetic multiepitope peptides identified in silico induce protective immunity against multiple influenza serotypes M2-based influenza vaccines: recent advances and clinical potential Tissue plasminogen activator (tPA) signal sequence enhances immunogenicity of MVA-based vaccine against tuberculosis Chadox1 and MVA based vaccine candidates against MERS-CoV elicit neutralising antibodies and cellular immune responses in mice Immunization with plasmid DNA encoding a truncated, secreted form of the bovine viral diarrhea virus E2 protein elicits strong humoral and cellular immune responses DNA vaccines against dengue virus based on the ns1 gene: the influence of different signal sequences on the protein expression and its correlation to the immune response elicited in mice Influenza A virus M2 protein: monoclonal antibody restriction of virus growth and detection of M2 in virions Universal vaccine based on ectodomain of matrix protein 2 of influenza A: Fc receptors and alveolar macrophages mediate protection Therapeutic potential of a fully human monoclonal antibody against influenza A virus M2 protein Human antibodies reveal a protective epitope that is highly conserved among human and nonhuman influenza A viruses Protection against avian influenza H9N2 virus challenge by immunization with hemagglutinin-or neuraminidase-expressing DNA in BALB/c mice Characterization of an H10N8 influenza virus isolated from Dongting lake wetland Characterization of lowpathogenic H6N6 avian influenza viruses in central China Gene transfer into muscle by electroporation in vivo Cross-protection against influenza virus infection by intranasal administration of M2-based vaccine with chitosan as an adjuvant Potent immunogenicity and efficacy of a universal influenza vaccine candidate comprising a recombinant fusion protein linking influenza M2e to the TLR5 ligand flagellin Cross-protection against influenza virus infection by intranasal administration of M1-based vaccine with chitosan as an adjuvant We thank Xuefang An, Hao Tang, Yuzhou Xiao, Youling Zhu and Fan Zhang (Core Facility and Technical Support at Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China) for assistance with the mice experiments. Therefore, further research on M2e vaccine is necessary.
    keywords: dna; groups; immunization; influenza; mice; p3m2e; protection; tpa; vaccine; virus
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        item: #2 of 41
          id: cord-003676-kr4o8hoc
      author: Tan, Chee Wah
       title: Serological evidence and experimental infection of cynomolgus macaques with pteropine orthoreovirus reveal monkeys as potential hosts for transmission to humans
        date: 2019-05-28
       words: 3953
      flesch: 47
     summary: We experimentally infected three seronegative, wild-caught monkeys with PRV3M. We demonstrated that monkeys were susceptible to PRV3M infection, but the infection was subclinical. PRV infections in humans vary from asymptomatic or mild flu-like to severe respiratory diseases.
    keywords: animals; bat; bats; human; infection; monkeys; prv; prv3; rna; transmission; virus
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        item: #3 of 41
          id: cord-264267-weat0qs6
      author: Kleine-Weber, Hannah
       title: Polymorphisms in dipeptidyl peptidase 4 reduce host cell entry of Middle East respiratory syndrome coronavirus
        date: 2020-01-21
       words: 7245
      flesch: 41
     summary: As DPP4 needs to be transported to the plasma membrane to be engaged by MERS-CoV S for host cell entry, we next investigated whether the presence of the polymorphic DPP4 residues has an impact on DPP4 cell surface localization. We identified four mutations that reduced MERS-CoV S binding to DPP4 and MERS-CoV S-driven host cell entry without affecting DPP4 expression at the cell surface.
    keywords: analysis; binding; cells; cov; cov s; dpp4; entry; expression; human; mers; pbs; polymorphisms; protein; residues
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        item: #4 of 41
          id: cord-265067-ejpblc6y
      author: Wen, Yu-Mei
       title: H7N9 avian influenza virus - search and re-search
        date: 2013-04-10
       words: 1110
      flesch: 45
     summary: The identification of H7N9 virus as a cause of human disease is only the beginning of a long journey aimed at the elucidation of the epidemiology, the host range, and the pathogenicity of this virus, and at the development of efficient vaccines and antiviral therapeutics. Of particular concern is the transmission of avian influenza viruses to humans with or without pigs as intermediate hosts.
    keywords: h7n9; influenza; virus; viruses
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        item: #5 of 41
          id: cord-266987-ikt8r2o1
      author: Loeffelholz, Michael J.
       title: Laboratory diagnosis of emerging human coronavirus infections – the state of the art
        date: 2020-03-30
       words: 4745
      flesch: 40
     summary: The species severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2 Genomic characterisation and epidemiology of 2019 novel coronavirus: implications for virus origins and receptor binding A pneumonia outbreak associated with a new coronavirus of probable bat origin Epidemiology and clinical presentations of the four human coronaviruses 229E, HKU1, NL63, and OC43 detected over 3 years using a novel multiplex real-time PCR method The role of super-spreaders in infectious disease COVID-19: epidemiology, evolution, and cross-disciplinary perspectives Early transmission dynamics in Wuhan, China, of novel coronavirus-infected pneumonia Clinical features of patients infected with 2019 novel coronavirus in Wuhan Updated understanding of the outbreak of 2019 novel coronavirus (2019-nCoV) in Wuhan Clinical course and outcomes of critically ill patients with SARS-CoV-2 pneumonia in Wuhan, China: a single-centered, retrospective, observational study Characteristics of COVID-19 infection in Beijing First case of 2019 novel coronavirus in the United States Diagnosis, treatment, and prevention of 2019 novel coronavirus infection in children: experts' consensus statement Clinical characteristics of coronavirus disease 2019 in China Practical guidance for clinical microbiology laboratories: viruses causing acute respiratory tract infections Simple method for combining sputum and nasal samples for virus detection by reverse transcriptase PCR Detection of SARS-CoV-2 in different types of clinical specimens Viral shedding patterns of coronavirus in patients with probable severe acute respiratory syndrome Middle East respiratory syndrome coronavirus infection dynamics and antibody Responses among clinically Diverse patients, Saudi Arabia Kinetics and pattern of viral excretion in biological specimens of two MERS-CoV cases Persistent shedding of viable SARS-CoV in urine and stool of SARS patients during the convalescent phase Consistent detection of 2019 novel coronavirus in saliva Growth and intracellular development of a new respiratory virus Cultivation of a novel type of common-cold virus in organ cultures A highly specific rapid antigen detection assay for on-site diagnosis of MERS Detection of severe acute respiratory syndrome (SARS) coronavirus nucleocapsid protein in SARS patients by enzymelinked immunosorbent assay Differentiation between human coronaviruses NL63 and 229E using a novel double-antibody sandwich enzyme-linked immunosorbent assay based on specific monoclonal antibodies Immunofluorescence assay for detection of the nucleocapsid antigen of the severe acute respiratory syndrome (SARS)-associated coronavirus in cells derived from throat wash samples of patients with SARS Comparison of immunofluorescence with monoclonal antibodies and RT-PCR for the detection of human coronaviruses 229E and OC43 in cell culture Evaluation of a commercial colloidal gold assay for detection of influenza A and B virus in children's respiratory specimens Rapid detection and monitoring of human coronavirus infections Examination of seroprevalence of coronavirus HKU1 infection with S protein-based ELISA and neutralization assay against viral spike pseudotyped virus Seroepidemiology of group I human coronaviruses in children Molecular and serological investigation of 2019-nCoV infected patients: implication of multiple shedding routes Middle East respiratory syndrome coronavirus quasispecies that include homologues of human isolates revealed through whole-genome analysis and virus cultured from dromedary camels in Saudi Arabia RNA based mNGS approach identifies a novel human coronavirus from two individual pneumonia cases in 2019 Wuhan outbreak A new coronavirus associated with human respiratory disease in China Identification of a novel coronavirus causing severe pneumonia in human: a descriptive study Co-infection with SARS-CoV-2 and influenza A virus in patient with pneumonia Laboratory diagnosis of respiratory tract infections in children -the State of the Art Molecular diagnosis of severe acute respiratory syndrome: the state of the art Emerging molecular assays for detection and characterization of respiratory viruses Molecular assays for the detection and characterization of respiratory viruses The dynamics of RNA shedding in MERS and SARS patients may reflect the specimen source, severity of illness, as well as underlying risk factors.
    keywords: cases; clinical; coronavirus; cov-2; detection; mers; novel; patients; pcr; respiratory; sars; specimens
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        item: #6 of 41
          id: cord-269232-rhhmvnlp
      author: Joseph, Sunitha
       title: First isolation of West Nile virus from a dromedary camel
        date: 2016-06-08
       words: 3167
      flesch: 50
     summary: 15 Tissue culture cell extracts infected with dromedary WNV were centrifuged at 19 000g at 4°C. West Nile virus in a dromedary S Joseph et al Viral diseases of new world camelids A transversal study on antibodies against selected pathogens in dromedary camels in the Canary Islands Rift Valley and West Nile virus antibodies in camels Emerging viral diseases in dromedary camels in the Southern Morocco Seroepidemiological studies for the detection of antibodies against nine infectious diseases in dairy dromedaries (Part-1) Middle East respiratory syndrome coronavirus (MERS-CoV): announcement of the Coronavirus Study Group Delayed induction of proinflammatory cytokines and suppression of innate antiviral response by the novel Middle East respiratory syndrome coronavirus: implications for pathogenesis and treatment Seroepidemiology for MERS coronavirus using microneutralisation and pseudoparticle virus neutralisation assays reveal a high prevalence of antibody in dromedary camels in Egypt Middle East Respiratory Syndrome coronavirus (MERS-CoV) serology in major livestock species in an affected region in Jordan Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia A phylogenetically distinct Middle East respiratory syndrome coronavirus detected in a dromedary calf from a closed dairy herd in Dubai with rising seroprevalence with age A sensitive and specific antigen detection assay for Middle East
    keywords: dromedaries; dromedary; east; genome; lineage; middle; novel; protein; virus; wnv
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        item: #7 of 41
          id: cord-270012-toompiz4
      author: González-Sanz, Rubén
       title: Enterovirus D68-associated respiratory and neurological illness in Spain, 2014–2018
        date: 2019-10-01
       words: 3561
      flesch: 47
     summary: Regarding respiratory diseases, in our country most of detected EV were not usually characterized, and the first reports of EV-D68 detection were published in 2015 Two cases of acute severe flaccid myelitis associated with enterovirus D68 infection in children Cluster of atypical adult Guillain-Barre syndrome temporally associated with neurological illness due to EV-D68 in children Enterovirus D68 infection in a cluster of children with acute flaccid myelitis First cases of severe flaccid paralysis associated With enterovirus D68 infection in Spain Molecular epidemiology of severe respiratory disease by human rhinoviruses and enteroviruses at a tertiary paediatric hospital in First enterovirus D68 (EV-D68) cases detected in hospitalised patients in a tertiary care university hospital in Spain Respiratory infections by enterovirus D68 in Outpatients and Inpatients Spanish children Molecular epidemiological study of HEV-B enteroviruses involved in the increase in meningitis cases occurred in Spain during World Health Organization.
    keywords: cases; d68; enterovirus; infections; patients
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        item: #8 of 41
          id: cord-276914-44ji0g78
      author: Chen, Weilie
       title: Detectable 2019-nCoV viral RNA in blood is a strong indicator for the further clinical severity
        date: 2020-02-26
       words: 2501
      flesch: 52
     summary: But we believe the existence of virus RNA in the stool samples from these patients because that a large amount of viral RNA was detected in anal swabs and that viral RNA had also been detected in a case reported from the United States [10] . In summary, we find that the presence of viral RNA in the blood and anal swab is positively correlated with the severe disease stage and that early monitoring of virus RNA in blood and the digestive tract on top of the respiratory tract might benefit the disease prediction.
    keywords: blood; day; rna; virus
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        item: #9 of 41
          id: cord-279733-c0w9bw5u
      author: Lui, Pak-Yin
       title: Middle East respiratory syndrome coronavirus M protein suppresses type I interferon expression through the inhibition of TBK1-dependent phosphorylation of IRF3
        date: 2016-04-20
       words: 5260
      flesch: 37
     summary: IRF3 phosphorylation was also suppressed with the expression of MERS M protein in a similar experimental setup ( Figure 4D ; lane 3 compared with lane 2). M proteins from MERS-CoV and SARS-CoV have three highly similar conserved N-terminal transmembrane domains and a C-terminal region.
    keywords: activation; coronavirus; cov; cov m; ifn; irf3; m protein; mers; protein; respiratory; traf3
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        item: #10 of 41
          id: cord-281727-elartlro
      author: Sun, Jing
       title: Isolation of infectious SARS-CoV-2 from urine of a COVID-19 patient
        date: 2020-05-18
       words: 979
      flesch: 51
     summary: Viral RNA was detected in multiple organs in COVID-19 patients. Although viral RNA can be detected in multiple organs in COVID-19 patients, infectious SARS-CoV-2 has only been isolated from respiratory specimens [3, 4] .
    keywords: patient; sars; urine
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        item: #11 of 41
          id: cord-282140-teplpmi6
      author: Horm, Srey Viseth
       title: Intense circulation of A/H5N1 and other avian influenza viruses in Cambodian live-bird markets with serological evidence of sub-clinical human infections
        date: 2016-07-20
       words: 5456
      flesch: 43
     summary: Influenza Other Respir A high diversity of Eurasian lineage low pathogenicity avian influenza A viruses circulate among wild birds sampled in Egypt Dynamic of H5N1 virus in Cambodia and emergence of a novel endemic sub-clade MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods Influenza A (H5N1) virus surveillance at live poultry markets, Cambodia Case-control study of risk factors for avian influenza A (H5N1) disease, Hong Kong Identifying live bird markets with the potential to act as reservoirs of avian influenza A (H5N1) virus: a survey in northern Viet Nam and Cambodia Isolation and characterization of avian influenza viruses, including highly pathogenic H5N1, from poultry in live bird markets in Hanoi Influenza virus (H5N1) in live bird markets and food markets Circulation of avian influenza H5N1 in live bird markets in Egypt Environmental sampling for avian influenza virus A (H5N1) in live-bird markets Detection of influenza A virus in live bird markets in Kenya Detection of HPAI H5N1 viruses in ducks sampled from live bird markets in Vietnam Avian influenza H5N1 surveillance and its dynamics in poultry in live bird markets Further monitoring of the circulation of influenza A/H5N1 in Cambodian LBMs and research into the mechanisms associated with human cases is warranted. ); and the World Health Organization country office in Cambodia (Grant NO Ecology of avian influenza viruses in a changing world Ecology of avian influenza virus in birds A new avian influenza virus from feral birds in the USSR: recombination in nature? Origins and evolutionary genomics of the 2009 swine-origin H1N1 influenza A epidemic Avian-to-human transmission of the PB1 gene of influenza A viruses in the 1957 and 1968 pandemics Multiple reassortment between pandemic (H1N1) 2009 and endemic influenza viruses in pigs, United States The virulence of the 1918 pandemic influenza virus: unraveling the enigma Clinical features and rapid viral diagnosis of human disease associated with avian influenza A H5N1 virus Molecular epidemiology of clade 1 influenza A viruses (H5N1), southern Indochina peninsula Identification of molecular markers associated with alteration of receptor-binding specificity in a novel genotype of highly pathogenic avian influenza A (H5N1) viruses detected in Cambodia in 2013 Avian influenza (195): Cambodia (BA, SI) H5N1, poultry, OIE.
    keywords: aivs; avian; h5n1; h9n2; human; influenza; markets; poultry; samples; study; virus; viruses
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        item: #12 of 41
          id: cord-284125-35ghtmhu
      author: Chua, Kaw Bing
       title: Perspectives of public health laboratories in emerging infectious diseases
        date: 2013-06-26
       words: 3612
      flesch: 15
     summary: Emerging Infections: getting ahead of the curve Emerging Infectious Diseases: a 10-year perspective from the National Institute of Allergy and Infectious Diseases Emerging viruses: the evolution of viruses and viral diseases Global trends in emerging infectious diseases Emerging viral diseases of Southeast Asia and the Western Pacific Emerging infections: microbial threats to health in the United States Resurgent vector-borne diseases as a global health problem key: cord-284125-35ghtmhu authors: Chua, Kaw Bing; Gubler, Duane J title: Perspectives of public health laboratories in emerging infectious diseases date: 2013-06-26 journal: Emerg Microbes Infect DOI: 10.1038/emi.2013.34 sha: doc_id: 284125 cord_uid: 35ghtmhu The world has experienced an increased incidence and transboundary spread of emerging infectious diseases over the last four decades.
    keywords: diseases; health; laboratories; laboratory; national; pathogens; public; system; virus
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        item: #13 of 41
          id: cord-285965-mar8zt2t
      author: Su, Liang
       title: The different clinical characteristics of corona virus disease cases between children and their families in China – the character of children with COVID-19
        date: 2020-03-25
       words: 2756
      flesch: 53
     summary: During the SARS outbreak, there were less children patients and the symptoms are significantly milder in children than in adults [13] Battling SARS on the frontlines Epidemiology and cause of severe acute respiratory syndrome (SARS) in People's Republic of China Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia Clinical features and short-term outcomes of 144 patients with SARS in the greater Toronto area Summary of probable SARS cases with onset of illness from 1 Severe acute respiratory syndrome in children: experience in a regional hospital in Hong Kong Clinical presentations and outcome of severe acute respiratory syndrome in children New and emerging infectious diseases The Novel Coronavirus Pneumonia Emergency Response Epidemiology Team.
    keywords: children; cov-2; families; patients; sars; study; virus
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        item: #14 of 41
          id: cord-288741-69pgy833
      author: Yang, Yue-Lin
       title: Trypsin promotes porcine deltacoronavirus mediating cell-to-cell fusion in a cell type-dependent manner
        date: 2020-02-24
       words: 5878
      flesch: 52
     summary: Cleavage assay of S protein in virus infected cells: LLC-PK and ST cells were infected with PDCoV (MOI = 0.1 and 10, respectively) in 5 μg/ml trypsin, and incubated for 24 h in order to increase virus replication and bring S protein to a detectable level. PDCoV in the current study was passaged fewer than 10 times, and titred by plaque assay in ST cells.
    keywords: cells; figure; llc; pdcov; porcine; replication; trypsin; virus
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        item: #15 of 41
          id: cord-290671-6p23qxb8
      author: Jiang, Shibo
       title: An emerging coronavirus causing pneumonia outbreak in Wuhan, China: calling for developing therapeutic and prophylactic strategies
        date: 2020-01-31
       words: 1136
      flesch: 32
     summary: A peptide derived from the HR2 domain of SARS-CoV S protein (SC-1) can interact with HR1 region in viral S protein to form heterologous 6-HB, resulting in the inhibition of homologous 6-HB formation between HR1 and HR2 domains in viral S protein and thus blocking the viral fusion with the host cell [6] . The RBDs of SARS-CoV and MERS-CoV contain multiple conformation-dependent neutralizing epitopes that induce more potent neutralizing antibodies and protective efficacy against SARS-CoV and MERS-CoV infections, respectively, than other regions in S protein [5, 8, 9] .
    keywords: cov; ncov; sars
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        item: #16 of 41
          id: cord-291002-csao3flr
      author: Chen, Cong
       title: Broad neutralizing activity of a human monoclonal antibody against H7N9 strains from 2013 to 2017
        date: 2018-11-14
       words: 4120
      flesch: 41
     summary: To trace the evolution of the H7 HAs in the five epidemic waves, we randomly selected 65 HA genes of human H7N9 viruses from April 2013 to January 2017 and conducted polygenetic analyses. Because H7N9 viruses are able to be transmitted by the airborne route between ferrets 5 and can infect and replicate in the human lower airways 6 , they have the potential for efficient human-to-human transmission and are an increasing pandemic threat.
    keywords: antibodies; antibody; binding; h7n9; hnigga6; human; influenza; virus
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        item: #17 of 41
          id: cord-291076-p350i54m
      author: Wang, Renxi
       title: The role of C5a in acute lung injury induced by highly pathogenic viral infections
        date: 2015-05-06
       words: 5804
      flesch: 34
     summary: The complement-activated product C5a is a strong chemoattractant and is involved in the recruitment of inflammatory cells such as neutrophils, eosinophils, monocytes, and T lymphocytes, in activation of phagocytic cells and release of granulebased enzymes and generation of oxidants. In lung fibroses, inflammatory cells produce a significantly greater amount of ROS.
    keywords: acute; ali; c5a; cells; complement; cytokines; h5n1; infection; influenza; injury; lung; role; virus
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        item: #18 of 41
          id: cord-296511-y2vhh6oq
      author: Zhang, YiMin
       title: Prevalence and characteristics of hypoxic hepatitis in the largest single-centre cohort of avian influenza A(H7N9) virus-infected patients with severe liver impairment in the intensive care unit
        date: 2016-01-06
       words: 3853
      flesch: 48
     summary: Here, we report a 1.8% (2/112) incidence of HH in the largest single-centre cohort of ICU patients with A(H7N9) infection. The incidence of HH in A(H7N9) patients is similar to that in ICU patients with other aetiologies.
    keywords: a(h7n9; admission; failure; hepatitis; infection; liver; patients
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        item: #19 of 41
          id: cord-297942-6wdwrttn
      author: Li, Taisheng
       title: Diagnosis and clinical management of severe acute respiratory syndrome Coronavirus 2 (SARS-CoV-2) infection: an operational recommendation of Peking Union Medical College Hospital (V2.0): Working Group of 2019 Novel Coronavirus, Peking Union Medical College Hospital
        date: 2020-03-14
       words: 1826
      flesch: 33
     summary: The guidelines for the diagnosis and treatment of severe acute respiratory syndrome coronavirus 2(SARS-CoV-2)infection (Pilot 3rd version Clinical management of severe acute respiratory infection when novel coronavirus (nCoV) infection is suspected: interim guidance Rapid loss of both CD4+ and CD8+ T lymphocyte subsets during the acute phase of severe acute respiratory syndrome key: cord-297942-6wdwrttn authors: Li, Taisheng title: Diagnosis and clinical management of severe acute respiratory syndrome Coronavirus 2 (SARS-CoV-2) infection: an operational recommendation of Peking Union Medical College Hospital (V2.0): Working Group of 2019 Novel Coronavirus, Peking Union Medical College Hospital date: 2020-03-14 journal: Emerg Microbes Infect DOI: 10.1080/22221751.2020.1735265 sha: doc_id: 297942 cord_uid: 6wdwrttn Since December 2019, China has been experiencing an outbreak of a new infectious disease caused by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).
    keywords: cov-2; medical; oxygen; patients; sars
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        item: #20 of 41
          id: cord-300641-narpqgmj
      author: Zhan, Siyi
       title: Public’s early response to the novel coronavirus–infected pneumonia
        date: 2020-03-03
       words: 470
      flesch: 54
     summary: Adults living in urban areas had a better awareness of the knowledge on NCIP than those in rural areas (72.7% vs.66.1%, p < 0.001 Protective measures such as washing hands, wearing masks and exercising can effectively prevent people from getting infected [4] [5] . key: cord-300641-narpqgmj authors: Zhan, Siyi; Yang, Ying Ying; Fu, Chuanxi title: Public’s early response to the novel coronavirus–infected pneumonia date: 2020-03-03 journal: Emerg Microbes Infect DOI: 10.1080/22221751.2020.1732232 sha: doc_id: 300641 cord_uid: narpqgmj nan To the editor: Originated from Wuhan city in central China and widely spread due to the mass migration for Lunar new year holiday, 17,000+ confirmed novel coronavirus (2019-nCoV)-infected pneumonia (NCIP) cases with 350+ deaths have been identified in the country since December 2019
    keywords: ncip; subjects
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        item: #21 of 41
          id: cord-304550-6j1pb1pu
      author: Yongchen, Zhang
       title: Different longitudinal patterns of nucleic acid and serology testing results based on disease severity of COVID-19 patients
        date: 2020-05-02
       words: 2034
      flesch: 36
     summary: The dynamic profile of viral replication and shedding along with viral antigen specific antibody responses among COVID-19 patients started to be reported but there is no consensus on their patterns. The dynamic profile of viral replication and shedding along with viral antigen specific antibody responses among COVID-19 patients started to be reported [2] but there is no consensus on their patterns.
    keywords: antibody; covid-19; patients; responses; sars
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        item: #22 of 41
          id: cord-304850-9xetsc2c
      author: Drosten, Christian
       title: Virus ecology: a gap between detection and prediction
        date: 2013-05-22
       words: 1501
      flesch: 41
     summary: Emerging Microbes and Infections A distinct lineage of influenza A virus from bats The neuraminidase of bat influenza viruses is not a neuraminidase Host species barriers to influenza virus infections Bats host major mammalian paramyxoviruses Novel potentially-zoonotic paramyxoviruses from the African straw-colored fruit bat, Eidolon helvum Measles eradication: past is prologue Characterization of a canine homolog of hepatitis C virus Serology-enabled discovery of genetically diverse hepaciviruses in a new host Infectious diseases in primitive societies Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia Human betacoronavirus 2c EMC/2012-related viruses in bats, Ghana and Europe What links bats to emerging infectious diseases? Crossing the line: selection and evolution of virulence traits Seasonal pulses of Marburg virus circulation in juvenile Rousettus aegyptiacus bats coincide with periods of increased risk of human infection Amplification of emerging viruses in a bat colony Canine hepacivirus NS3 serine protease can cleave the human adaptor proteins MAVS and TRIF Viral immune modulators perturb the human molecular network by common and unique strategies The Deutsche Forschungsgemeinschaft (Germany's national research council) has established a priority program on ecology and species barriers in emerging viral diseases (coordinator's grant to Christian Drosten, DR 772/10-1). key: cord-304850-9xetsc2c authors: Drosten, Christian title: Virus ecology: a gap between detection and prediction date: 2013-05-22 journal: Emerg Microbes Infect DOI: 10.1038/emi.2013.25 sha: doc_id: 304850 cord_uid: 9xetsc2c nan Virologists have been surprised by a recent report that has changed our long-standing conception of the ecology of influenza viruses.
    keywords: bat; bats; host; human; viruses
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        item: #23 of 41
          id: cord-312307-0hqqheho
      author: Ng, Kim Tien
       title: Outbreaks of enterovirus D68 in Malaysia: genetic relatedness to the recent US outbreak strains
        date: 2015-08-05
       words: 1141
      flesch: 42
     summary: Enterovirus surveillance -United States Clusters of acute respiratory illness associated with human enterovirus 68 -Asia Severe respiratory illness associated with enterovirus D68 -Missouri and Illinois Genome sequence of enterovirus D68 from Genome sequence of enterovirus D68 and clinical disease Seven strains of enterovirus D68 detected in the United States during the 2014 severe respiratory disease outbreak Transmission of the common cold to volunteers under controlled conditions. key: cord-312307-0hqqheho authors: Ng, Kim Tien; Oong, Xiang Yong; Pang, Yong Kek; Hanafi, Nik Sherina; Kamarulzaman, Adeeba; Tee, Kok Keng title: Outbreaks of enterovirus D68 in Malaysia: genetic relatedness to the recent US outbreak strains date: 2015-08-05 journal: Emerg Microbes Infect DOI: 10.1038/emi.2015.47 sha: doc_id: 312307 cord_uid: 0hqqheho nan temperature ( 6 C), relative humidity (%), number of rain days, and the amount of rainfall (mm) collected from the nearest meteorological station (latitude: 3 6 069N, longitude: 101 6 399E) was analyzed using Pearson's correlation.
    keywords: d68; enterovirus; lineage; outbreak
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        item: #24 of 41
          id: cord-314189-0rg6n7fr
      author: He, Biao
       title: Intranasal application of polyethyleneimine suppresses influenza virus infection in mice
        date: 2016-04-27
       words: 1205
      flesch: 41
     summary: Bacteria and their toxins tamed for immunotherapy Mucosal pre-exposure to Th17-inducing adjuvants exacerbates pathology after influenza infection Polyethyleneimine is a potent mucosal adjuvant for viral glycoprotein antigens Putative suppressing effect of IgG Fc-conjugated haemagglutinin (HA) stalk of influenza virus H7N9 on the neutralizing immunogenicity of Fc-conjugated HA head: implication for rational design of HA-based influenza vaccines Infection of influenza virus neuraminidase-vaccinated mice with homologous influenza virus leads to strong protection against heterologous influenza viruses Protection from pulmonary tissue damage associated with infection of cynomolgus macaques by highly pathogenic avian influenza virus (H5N1) by low dose natural human IFN-alpha administered to the buccal mucosa GM-CSF in the lung protects against lethal influenza infection IFITM3 restricts the morbidity and mortality associated with influenza Recent developments in nucleic acid delivery with polyethylenimines However, CT can exacerbate lung pathology after influenza virus infection through the induction of IL-17, a potent proinflammatory cytokine, because co-administration of an IL-17RA neutralizing antibody with CT attenuates lung pathology and increases protection against influenza virus infection.
    keywords: influenza; mice; pei; virus
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        item: #25 of 41
          id: cord-314254-9ye8tfvz
      author: Pfaender, Stephanie
       title: Natural reservoirs for homologs of hepatitis C virus
        date: 2014-03-26
       words: 6843
      flesch: 42
     summary: I. Transmission of disease, serial passages, and description of liver lesions Identification of two flavivirus-like genomes in the GB hepatitis agent Isolation of novel virus-like sequences associated with human hepatitis Molecular cloning and disease association of hepatitis G virus: a transfusion-transmissible agent Identification of GBV-D, a novel GB-like flavivirus from old world frugivorous bats (Pteropus giganteus) in Bangladesh Molecular characterization of the hepatitis G virus Sequence and genomic organization of GBV-C: a novel member of the flaviviridae associated with human non-A-E hepatitis Characterization of hepatitis G virus (GB-C virus) particles: evidence for a nucleocapsid and expression of sequences upstream of the E1 protein The GB viruses: a review and proposed classification of GBV-A, GBV-C (HGV), and GBV-D in genus Pegivirus within the family Flaviviridae Expanded classification of hepatitis C virus into 7 genotypes and 67 subtypes: updated criteria and assignment web resource Hepatitis C viral dynamics in vivo and the antiviral efficacy of interferon-alpha therapy Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes Genetic diversity and evolution of hepatitis C virus-15 years on New insights into the HCV quasispecies and compartmentalization Epidemiology of hepatitis C: geographic differences and temporal trends The epidemic behavior of the hepatitis C virus The origin and evolution of hepatitis viruses in humans Glycosylation of hepatitis C virus envelope proteins Role of N-linked glycans in the functions of hepatitis C virus envelope proteins incorporated into infectious virions Nonprimate hepaciviruses in domestic horses, United kingdom A novel hepacivirus with an unusually long and intrinsically disordered NS5A protein in a wild Old World primate Bats: important reservoir hosts of emerging viruses Bats and their virome: an important source of emerging viruses capable of infecting humans Bats carry pathogenic hepadnaviruses antigenically related to hepatitis B virus and capable of infecting human hepatocytes Analysis of hepatitis C virus intrahost diversity across the coding region by ultradeep pyrosequencing Identification of a previously undescribed divergent virus from the Flaviviridae family in an outbreak of equine serum hepatitis Identification of a pegivirus (GB virus-like virus) that infects horses A cross-species view on viruses Global trends in emerging infectious diseases A strategy to estimate unknown viral diversity in mammals Virology: the virus whose family expanded Bats and viruses: friend or foe? To date, there is no evidence for an animal reservoir of viruses closely related to hepatitis C virus which may have crossed the species barrier to cause disease in humans and resulted in the current pandemic.
    keywords: bats; gbv; hcv; hepaciviruses; hepatitis; horses; infection; liver; nphv; proteins; rna; species; virus; viruses
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        item: #26 of 41
          id: cord-314350-kcatqzgs
      author: Zhang, Xinyu
       title: An emerging novel goose astrovirus associated with gosling gout disease, China
        date: 2018-09-05
       words: 3547
      flesch: 41
     summary: Different from those recently reported by other groups, we efficiently isolate such novel goose astrovirus in vitro using the cell culture system (LMH cells) and reproduce the associated gout disease by inoculating the cell cultured virus GD. This highlights at least two species of goose astrovirus associated with different diseases are circulating in goslings flocks in China.
    keywords: astrovirus; cells; disease; goose; goslings; gout; infected; novel
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        item: #27 of 41
          id: cord-314574-3e6u4aza
      author: Tian, Xiaolong
       title: Potent binding of 2019 novel coronavirus spike protein by a SARS coronavirus-specific human monoclonal antibody
        date: 2020-02-17
       words: 1873
      flesch: 46
     summary: Genomic characterization of the 2019 novel human-pathogenic coronavirus isolated from a patient with atypical pneumonia after visiting Wuhan A pneumonia outbreak associated with a new coronavirus of probable bat origin Potent cross-reactive neutralization of SARS coronavirus isolates by human monoclonal antibodies Human monoclonal antibody as prophylaxis for SARS coronavirus infection in ferrets. In previous studies, a number of potent monoclonal antibodies against SARS coronavirus (SARS-CoV) have been identified [3] [4] [5] [6] [7] .
    keywords: antibodies; ncov; rbd; sars
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        item: #28 of 41
          id: cord-315355-a25ba7dz
      author: Chen, Qi
       title: The emergence of novel sparrow deltacoronaviruses in the United States more closely related to porcine deltacoronaviruses than sparrow deltacoronavirus HKU17
        date: 2018-06-06
       words: 1781
      flesch: 44
     summary: However, there is no obvious pattern showing that the emergence of SpDCoV strains identified in the study was through recombination between PDCoV and sparrow CoV HKU17. PDCoV strains reported from the United States and other countries had 97.1-99.9% nucleotide identity at the whole-genome level 8 , suggesting that a single genotype is circulating worldwide.
    keywords: hku17; identity; pdcov; samples; sparrow; strains
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        item: #29 of 41
          id: cord-318392-r9bbomvk
      author: Woo, Patrick CY
       title: Coronavirus HKU15 in respiratory tract of pigs and first discovery of coronavirus quasispecies in 5′-untranslated region
        date: 2017-06-21
       words: 3781
      flesch: 45
     summary: The presence of the virus in respiratory samples provides an alternative clinical sample to confirm the diagnosis of Coronavirus HKU15 infection. Third, the presence of the virus in respiratory samples provides an alternative clinical sample to confirm the diagnosis of Coronavirus HKU15 infection.
    keywords: coronavirus; coronavirus hku15; genome; hku15; nasopharyngeal; pcr; pigs; samples; sequence; strains
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        item: #30 of 41
          id: cord-325611-tu1bn4hu
      author: Pérez-Sautu, Unai
       title: Target-independent high-throughput sequencing methods provide evidence that already known human viral pathogens play a main role in respiratory infections with unexplained etiology
        date: 2019-07-23
       words: 5292
      flesch: 35
     summary: Identification of respiratory viruses by HTS was confirmed by contig-specific RT-PCR analysis. Deaths by cause, age, sex, by country and by region Epidemiology and etiology of childhood pneumonia in 2010: estimates of incidence, severe morbidity, mortality, underlying risk factors and causative pathogens for 192 countries Emerging advances in rapid diagnostics of respiratory infections Mortality due to gastroenteritis of unknown etiology in the United States Deaths due to unknown foodborne agents Viral encephalitis of unknown cause: current perspective and recent advances National Institutes of Health Consensus Development Conference on Infantile Apnea and Home Monitoring Simultaneous detection of influenza A, B, and C viruses, respiratory syncytial virus, and adenoviruses in clinical samples by multiplex reverse transcription nested-PCR assay Simultaneous detection of fourteen respiratory viruses in clinical specimens by two multiplex reverse transcription nested-PCR assays Infections and coinfections by respiratory human bocavirus during eight seasons in hospitalized children A metagenomics study for the identification of respiratory viruses in mixed clinical specimens: an application of the iterative mapping approach Characterization of the nasopharyngeal viral microbiome from children with community-acquired pneumonia but negative for Luminex xTAG
    keywords: analysis; contigs; control; group; hts; human; infections; pathogens; reads; specimens; virus; viruses
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        item: #31 of 41
          id: cord-325969-9zhmmvdg
      author: To, Kelvin KW
       title: Additional molecular testing of saliva specimens improves the detection of respiratory viruses
        date: 2017-06-07
       words: 4544
      flesch: 43
     summary: Although NPAs have high viral loads and remain the specimen of choice for most patients with respiratory virus infections, supplementary molecular testing of saliva can improve the clinical management of these patients. 17 However, in studies that have tested multiple specimen types, nasopharyngeal specimens have been found to be negative in some patients with respiratory virus infections.
    keywords: detection; influenza; npa; patients; pcr; respiratory; saliva; specimens; viruses
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        item: #32 of 41
          id: cord-326512-iex98lr1
      author: Niu, Xuefeng
       title: Convalescent patient-derived monoclonal antibodies targeting different epitopes of E protein confer protection against Zika virus in a neonatal mouse model
        date: 2019-05-25
       words: 5674
      flesch: 53
     summary: For antigen-specific memory B cells, we used ZIKV E protein (Cat. no. 40543-V08B4; Sino Biological Inc., Beijing, China) as a probe. Amino acid sequence alignment between E proteins of ZIKV and DENV revealed that residue K394 on ZIKV E protein corresponds to K385 on DENV1, which is not present on the E proteins of DENV2, DENV3, or DENV4 ( Figure 2(D) ).
    keywords: 1c11; 6a6; 7b3; antibodies; antibody; binding; cells; ediii; infection; mabs; protein; virus; zika; zikv
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        item: #33 of 41
          id: cord-327024-1k5jucae
      author: Zhang, Qingshui
       title: Isolation and characterization of an astrovirus causing fatal visceral gout in domestic goslings
        date: 2018-04-19
       words: 4173
      flesch: 41
     summary: Bidin et al. 18 reported the detection of avian nephritis virus infection in Croatian goose flocks and provided evidence that this AstV was associated with stunting and prehatching mortality of goose embryos. Infected goslings exhibited signs of depression from 3 dpi and this symptom persisted for 3-4 days.
    keywords: astrovirus; astv; birds; dpi; fig; goose; goslings; infection; isolate; rna; virus
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        item: #34 of 41
          id: cord-327499-4aps0kvp
      author: Zhang, Wei
       title: Molecular and serological investigation of 2019-nCoV infected patients: implication of multiple shedding routes
        date: 2020-02-17
       words: 1986
      flesch: 59
     summary: Above all, we strongly suggest using viral IgM and IgG serological test to confirm an infection, considering the unreliable results from oral swabs detection. It was believed that 2019-nCoV was transmitted through respiratory tract and then induced pneumonia, thus molecular diagnosis based on oral swabs was used for confirmation of this disease.
    keywords: ncov; patients; positive; swabs; virus
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        item: #35 of 41
          id: cord-329555-y3cp5wza
      author: Negrey, Jacob D.
       title: Simultaneous outbreaks of respiratory disease in wild chimpanzees caused by distinct viruses of human origin
        date: 2019-01-21
       words: 5320
      flesch: 35
     summary: Noninvasive monitoring of respiratory viruses in wild chimpanzees Descriptive epidemiology of fatal respiratory outbreaks and detection of a human-related metapneumovirus in wild chimpanzees Codetection of respiratory syncytial virus in habituated wild western lowland gorillas and humans during a respiratory disease outbreak Human respiratory syncytial virus and Streptococcus pneumoniae infection in wild bonobos Lethal respiratory disease associated with human rhinovirus C in wild chimpanzees Human coronavirus OC43 outbreak in wild chimpanzees Phylogeny and geography predict pathogen community similarity in wild primates and humans Best practice Guidelines for health monitoring and disease control in great Ape populations. Paired fecal samples were available from 25 clinically ill chimpanzees (11 from Ngogo and 14 from Kanyawara) during and before (fourth quarter of 2016) the outbreak period, and we tested these for a suite of respiratory pathogens using the NxTAG Respiratory Pathogen Panel (Luminex Corporation, Austin, TX, USA) as previously described [10] , which tests for influenza virus A (multiple subtypes), human respiratory syncytial viruses A and B, coronaviruses (multiple subtypes), human metapneumovirus, rhinovirus/enterovirus, adenovirus, parainfluenza viruses 1-4, bocavirus, and the bacterial pathogens Chlamydophila pneumoniae and Mycoplasma pneumoniae.
    keywords: chimpanzees; disease; hrv3; human; infection; kanyawara; mpv; ngogo; outbreak; respiratory; signs; transmission; viruses
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        item: #36 of 41
          id: cord-336157-aqc9zrrm
      author: Liang, Guodong
       title: Factors responsible for the emergence of arboviruses; strategies, challenges and limitations for their control
        date: 2015-03-25
       words: 4112
      flesch: 36
     summary: [52] [53] Now, in the 21st century genetically engineered live attenuated vaccines can be manufactured within months, to protect humans against the ravages of pandemic influenza and other virus diseases. Therefore, unlike, smallpox virus, measles virus or poliovirus, arbovirus disease control based on humans, livestock and/or domestic animals cannot eradicate the arbovirus.
    keywords: animals; arboviruses; control; disease; fever; humans; mosquitoes; species; strategies; transmission; virus
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        item: #37 of 41
          id: cord-336671-vfq5ft08
      author: Ai, Jing-Wen
       title: Era of molecular diagnosis for pathogen identification of unexplained pneumonia, lessons to be learned
        date: 2020-03-16
       words: 1884
      flesch: 46
     summary: Recent advances in the detection of respiratory virus infection in humans A familial cluster of pneumonia associated with the 2019 novel coronavirus indicating person-to-person transmission: a study of a family cluster A pneumonia outbreak associated with a new coronavirus of probable bat origin A new coronavirus associated with human respiratory disease in China RNA based mNGS approach identifies a novel human coronavirus from two individual pneumonia cases in 2019 Wuhan outbreak Clinical metagenomic sequencing for diagnosis of meningitis and encephalitis Comparison of the filmarray respiratory panel and prodesse realtime PCR assays for detection of respiratory pathogens However, these methods were not able to detect novel pathogens as in the case of Hubei Province.
    keywords: crispr; novel; pcr; pneumonia; sars
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        item: #38 of 41
          id: cord-343196-vlwzzrgc
      author: Kiambi, Stella
       title: Detection of distinct MERS-Coronavirus strains in dromedary camels from Kenya, 2017
        date: 2018-11-28
       words: 1496
      flesch: 36
     summary: Isolation of a novel coronavirus from a man with pneumonia in Saudi Arabia MERS and the dromedary camel trade between Africa and the Middle East MERS coronaviruses from camels in Africa exhibit regiondependent genetic diversity Cross-sectional surveillance of Middle East respiratory syndrome coronavirus (MERS-CoV) in dromedary camels and other mammals in Egypt Antibodies against MERS coronavirus in dromedary camels MERS-CoV Antibodies in Humans Detection of a novel human coronavirus by real-time reverse-transcription polymerase chain reaction Time Course of MERS-CoV Infection and Immunity in Dromedary Camels Rooting the phylogenetic tree of middle East respiratory syndrome coronavirus by characterization of a conspecific virus from an African bat Co-circulation of three camel coronavirus species and recombination of MERS-CoVs in Saudi Arabia Structure of MERS-CoV spike receptor-binding domain complexed with human receptor DPP4 MERS-CoV 4b protein interferes with the NF-kappaBdependent innate immune response during infection Middle East respiratory syndrome coronavirus accessory protein 4a is a type I interferon antagonist Transgene expression in the genome of Middle East respiratory syndrome coronavirus based on a novel reverse genetics system utilizing Redmediated recombination cloning The limited number of human MERS cases in Africa would certainly favor the idea that MERS-CoV strains differ in virulence and transmissibility.
    keywords: cov; mers; strains
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        item: #39 of 41
          id: cord-349956-h4i2t2cr
      author: Hoang, Van-Thuan
       title: The dynamics and interactions of respiratory pathogen carriage among French pilgrims during the 2018 Hajj
        date: 2019-11-21
       words: 4857
      flesch: 41
     summary: key: cord-349956-h4i2t2cr authors: Hoang, Van-Thuan; Dao, Thi-Loi; Ly, Tran Duc Anh; Belhouchat, Khadidja; Chaht, Kamel Larbi; Gaudart, Jean; Mrenda, Bakridine Mmadi; Drali, Tassadit; Yezli, Saber; Alotaibi, Badriah; Fournier, Pierre-Edouard; Raoult, Didier; Parola, Philippe; de Santi, Vincent Pommier; Gautret, Philippe title: The dynamics and interactions of respiratory pathogen carriage among French pilgrims during the 2018 Hajj date: 2019-11-21 journal: Emerg Microbes Infect DOI: 10.1080/22221751.2019.1693247 sha: doc_id: 349956 cord_uid: h4i2t2cr We conducted this study to describe the dynamics of the acquisition of respiratory pathogens, their potential interactions and risk factors for possible lower respiratory tract infection symptoms (LRTI) among French pilgrims during the 2018 Hajj. Unadjusted associations between respiratory pathogen carriage with multiples factors: sociodemographic characteristics (gender, ≥60 years), chronic respiratory disease, BMI classification, smoking status; individual preventive measures (vaccination against influenza, vaccination against IPD, use of a face mask, hand washing, disinfectant gel and disposable handkerchiefs); antibiotic intake 10 days before each sample; respiratory virus or bacteria and dual carriage were analysed by univariable analysis.
    keywords: aureus; carriage; catarrhalis; hajj; influenzae; pathogens; pilgrims; pneumoniae; symptoms
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        item: #40 of 41
          id: cord-354546-lgkqwm6u
      author: Yin, Yingxian
       title: Epidemiologic investigation of a family cluster of imported ZIKV cases in Guangdong, China: probable human-to-human transmission
        date: 2016-09-07
       words: 4093
      flesch: 50
     summary: A bibliometric analysis of global Zika research Zika virus and Guillain-Barre syndrome: another viral cause to add to the list Guillain-Barre syndrome outbreak associated with Zika virus infection in French Polynesia: a case-control study Neurological expertise is essential for Zika virus infection Zika virus infects human cortical neural progenitors and attenuates their growth Biology of Zika virus infection in human skin cells Characterization of lethal Zika virus infection in AG129 mice Zika virus: the latest newcomer Zika virus in Gabon (Central Africa)-2007: a new threat from Aedes albopictus The Zika outbreak of the 21st century Probable non-vector-borne transmission of Zika virus Potential sexual transmission of Zika virus Zika: another sexually transmitted infection? An animal model of ZIKV infection has been established in AG129 mice by foot pad injection.
    keywords: china; family; fever; infection; study; transmission; virus; zika; zikv
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        item: #41 of 41
          id: cord-354790-xx6imhzb
      author: Lambour, Jennifer
       title: Converting monoclonal antibody-based immunotherapies from passive to active: bringing immune complexes into play
        date: 2016-08-17
       words: 6514
      flesch: 25
     summary: Tsouchnikas et al. 84 investigated the influence of immunization with ICs on the specificity of antibody responses using the E protein of the tick-borne encephalitis virus as an immunogen. Thus, such phenomena can profoundly influence the fine specificity of antibody responses to the same immunogen and must be considered in IC-based vaccination strategies.
    keywords: antibodies; antibody; antiviral; cell; hiv; ics; immune; infection; mabs; responses; virus
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