Pan-Viral Screening of Respiratory Tract Infections in Adults With and Without Asthma Reveals Unexpected Human Coronavirus and Human Rhinovirus Diversity

Abstract Background. Between 50% and 80% of asthma exacerbations are associated with viral respiratory tract infections (RTIs), yet the influence of viral pathogen diversity on asthma outcomes is poorly understood because of the limited scope and throughput of conventional viral detection methods. Methods. We investigated the capability of the Virochip, a DNA microarray—based viral detection platform, to characterize viral diversity in RTIs in adults with and without asthma. Results. The Virochip detected viruses in a higher proportion of samples (65%) than did culture isolation (17%) while exhibiting high concordance (98%) with and comparable sensitivity (97%) and specificity (98%) to pathogen-specific polymerase chain reaction. A similar spectrum of viruses was identified in the RTIs of each patient subgroup; however, unexpected diversity among human coronaviruses (HCoVs) and human rhinoviruses (HRVs) was revealed. All but one of the HCoVs corresponded to the newly recognized HCoV-NL63 and HCoV-HKU1 viruses, and >20 different serotypes of HRVs were detected, including a set of 5 divergent isolates that formed a distinct genetic subgroup. Conclusions. The Virochip can detect both known and novel variants of viral pathogens present in RTIs. Given the diversity detected here, larger-scale studies will be necessary to determine whether particular substrains of viruses confer an elevated risk of asthma exacerbation.

• Publication year

  2007

• Venue

  Journal of Infectious Diseases

• Publication date

  2007-09-15

• Fields of study

  Biology, Medicine

• Identifiers
  DOI 10.1086/520816PMID 17703411PMCID 7109683
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Diagnosis of a Critical Respiratory Illness Caused by Human Metapneumovirus by Use of a Pan-Virus Microarray

  2007cited by this paper
• Characterisation of a newly identified human rhinovirus, HRV-QPM, discovered in infants with bronchiolitis

  2007cited by this paper
• Genome-wide diversity and selective pressure in the human rhinovirus

  2007cited by this paper
• Coronavirus HKU1 Infection in the United States

  2006cited by this paper
• The role of T lymphocytes in asthma.

  2006cited by this paper
• Human coronavirus NL63, a new respiratory virus

  2006cited by this paper
• Detection of Rhinoviruses by Tissue Culture and Two Independent Amplification Techniques, Nucleic Acid Sequence-Based Amplification and Reverse Transcription-PCR, in Children with Acute Respiratory Infections during a Winter Season

  2006cited by this paper
• Identification of a Novel Gammaretrovirus in Prostate Tumors of Patients Homozygous for R462Q RNASEL Variant

  2006cited by this paper
• MassTag Polymerase-Chain-Reaction Detection of Respiratory Pathogens, Including a New Rhinovirus Genotype, That Caused Influenza-Like Illness in New York State during 2004–2005

  2006influential reference
• Microarray Detection of Human Parainfluenzavirus 4 Infection Associated with Respiratory Failure in an Immunocompetent Adult

  2006cited by this paper
• Characterization and Complete Genome Sequence of a Novel Coronavirus, Coronavirus HKU1, from Patients with Pneumonia

  2005cited by this paper
• Viruses in asthma exacerbations

  2005cited by this paper
• E-Predict: a computational strategy for species identification based on observed DNA microarray hybridization patterns

  2005cited by this paper
• The Wisconsin Upper Respiratory Symptom Survey is responsive, reliable, and valid

  2005cited by this paper
• PHYLIP (Phylogeny Inference Package)

  2004cited by this paper
• Rhinovirus and the lower respiratory tract†

  2004cited by this paper
• Viral Discovery and Sequence Recovery Using DNA Microarrays

  2003cited by this paper
• The common cold

  2003cited by this paper
• Genetic clustering of all 102 human rhinovirus prototype strains: serotype 87 is close to human enterovirus 70.

  2002influential reference
• Microarray-based detection and genotyping of viral pathogens

  2002cited by this paper
• Viruses in asthma

  2002cited by this paper
• Relationship of upper and lower airway cytokines to outcome of experimental rhinovirus infection.

  2000cited by this paper
• Peak expiratory flow changes during experimental rhinovirus infection.

  2000cited by this paper
• Rhinovirus-16 colds in healthy and in asthmatic subjects: similar changes in upper and lower airways.

  1999cited by this paper
• Experimental rhinovirus 16 infection causes variable airway obstruction in subjects with atopic asthma.

  1999cited by this paper
• Cluster analysis and display of genome-wide expression patterns.

  1998cited by this paper
• Consed: a graphical tool for sequence finishing.

  1998influential reference
• Effects of experimental rhinovirus 16 infection on airway hyperresponsiveness to bradykinin in asthmatic subjects in vivo.

  1997cited by this paper
• Effect of experimental rhinovirus 16 colds on airway hyperresponsiveness to histamine and interleukin‐8 in nasal lavage in asthmatic subjects in vivo

  1997cited by this paper
• The Incidence of Respiratory Tract Infection in Adults Requiring Hospitalization for Asthma

  1997cited by this paper
• Experimental rhinovirus 16 infection. Effects on cell differentials and soluble markers in sputum in asthmatic subjects.

  1997cited by this paper
• Prechallenge Antibodies: Moderators of Infection Rate, Signs, and Symptoms in Adults Experimentally Challenged With Rhinovirus Type 39

  1996cited by this paper
• The relationship between upper respiratory infections and hospital admissions for asthma: a time-trend analysis.

  1996cited by this paper
• Lower airways inflammation during rhinovirus colds in normal and in asthmatic subjects.

  1995cited by this paper
• Community study of role of viral infections in exacerbations of asthma in 9-11 year old children

  1995cited by this paper
• Rhinovirus inhalation causes long-lasting excessive airway narrowing in response to methacholine in asthmatic subjects in vivo.

  1995cited by this paper
• Respiratory viruses and exacerbations of asthma in adults.

  1993cited by this paper
• Two groups of rhinoviruses revealed by a panel of antiviral compounds present sequence divergence and differential pathogenicity

  1990cited by this paper
• Basic local alignment search tool.

  1990cited by this paper
• Exacerbations of asthma in adults during experimental rhinovirus infection.

  1985cited by this paper
• Many rhinovirus serotypes share the same cellular receptor

  1984cited by this paper
• Antigenic groupings of 90 rhinovirus serotypes

  1982cited by this paper
• The common cold.

  1981cited by this paper
• Coronavirus infections in working adults. Eight-year study with 229 E and OC 43.

  1972cited by this paper

• Unraveling the mechanisms of virus-induced asthma exacerbation: epithelial injury, immune dysregulation, and novel interventions

  2025cites this paper
• Prevalence of acute infection in adults with asthma exacerbation: A systematic review and meta-analysis

  2023cites this paper
• Epidemiology and Immunopathogenesis of Virus Associated Asthma Exacerbations

  2023cites this paper
• Effects of COVID-19 and Social Distancing on Rhinovirus Infections and Asthma Exacerbations

  2022cites this paper
• Anti-inflammatory effects of medications used for viral infection-induced respiratory diseases

  2022cites this paper
• Viral infection and allergy status impact severity of asthma symptoms in children with asthma exacerbations.

  2022cites this paper
• Comparing variability in diagnosis of upper respiratory tract infections in patients using syndromic, next generation sequencing, and PCR-based methods

  2022cites this paper
• Reduced CCR6+IL-17A+Treg Cells in Blood and CCR6-Dependent Accumulation of IL-17A+Treg Cells in Lungs of Patients With Allergic Asthma

  2021cites this paper
• The proton ATPase inhibitor bafilomycin A1 reduces the release of rhinovirus C and cytokines from primary cultures of human nasal epithelial cells.

  2021cites this paper
• SARS-CoV-2 (COVID-19): Beginning to Understand a New Virus.

  2021cites this paper
• Picornaviridae: Enterovirus

  2021cites this paper
• Assessment of the Association of COPD and Asthma with In-Hospital Mortality in Patients with COVID-19. A Systematic Review, Meta-Analysis, and Meta-Regression Analysis

  2021cites this paper
• Trajectory of Corona Epidemic in India: An Initial Phase Predictive Mathematical Model and the Present Status

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• Defining Age-specific Relationships of Respiratory Syncytial Virus and Rhinovirus Species in Hospitalized Children With Acute Wheeze

  2021cites this paper
• Corona Epidemic in Indian context: Predictive Mathematical Modelling

  2020cites this paper
• An Overview of the Crystallized Structures of the SARS-CoV-2

  2020cites this paper
• The Molecular Epidemiology and Clinical Phylogenetics of Rhinoviruses Among Paediatric Cases in Sydney, Australia

  2020cites this paper
• Investigation of occurrence patterns of respiratory syncytial virus A and B in infected-patients from Cheonan, Korea

  2020cites this paper
• Molecular mechanisms and epidemiology of COVID-19 from an allergist’s perspective

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• Global trends in coronavirus research at the time of Covid-19: A general bibliometric approach and content analysis using SciMAT

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• EVALUATION OF DRUG UTILIZATION PATTERN OF ANTIMICROBIAL AGENTS IN INDOOR ADULT PATIENTS OF OTORHINOLARYNGOLOGY (ENT), IN A TERTIARY CARE TEACHING HOSPITAL WESTERN RAJASTHAN.

  2020cites this paper
• Molecular methods in detection and epidemiologic studies of rabbit and hare viruses: a review

  2019cites this paper
• Lung microbiome dynamics in chronic obstructive pulmonary disease exacerbations

  2019cites this paper
• Rhinovirus structure, replication, and classification

  2019cites this paper
• Distribution of Respiratory Viral Agents in Patients Being Followed-Up in Our Pediatric Emergency Department

  2019cites this paper
• Exacerbations of chronic respiratory diseases

  2019cites this paper
• Rhinovirus replication and innate immunity in highly differentiated human airway epithelial cells

  2019cites this paper
• Bioinformatics and Microarray-Based Technologies to Viral Genome Sequence Analysis

  2019cites this paper
• Impact of community respiratory viral infections in urban children with asthma

  2018cites this paper
• Small Animal Models of Respiratory Viral Infection Related to Asthma

  2018cites this paper
• Laboratory Methods in Molecular Epidemiology: Viral Infections

  2018cites this paper
• Airway Interleukin-33 and type 2 cytokines in adult patients with acute asthma

  2018cites this paper
• Sepsis grave y shock séptico en urgencias

  2017cites this paper
• Enteroviruses: Classification, diseases they cause, and approaches to development of antiviral drugs

  2017cites this paper
• Rhinovirus Biology, Antigenic Diversity, and Advancements in the Design of a Human Rhinovirus Vaccine

  2017cites this paper
• Defining T-cell immunity against rhinovirus species A and C

  2017cites this paper
• Human Airway Epithelial Cells Direct Significant Rhinovirus Replication in Monocytic Cells by Enhancing ICAM1 Expression

  2017cites this paper
• Complete Genome Sequence of a Divergent Human Rhinovirus C Isolate from an Infant with Severe Community-Acquired Pneumonia in Colorado, USA

  2017cites this paper
• Evolution of selective-sequencing approaches for virus discovery and virome analysis

  2017cites this paper
• Viral Upper Respiratory Tract Infections

  2017cites this paper
• Sepsis sévère et choc septique aux urgences

  2017cites this paper
• Metagenomic Next-Generation Sequencing Detects Pulmonary Pathogens in Hematopoietic Cellular Transplant Patients with Acute Respiratory Illnesses

  2017cites this paper
• Ventilator-Associated Pneumonia in Critically Ill Children: A New Paradigm.

  2017cites this paper
• The lung microbiome in virus-induced asthma exacerbations

  2017cites this paper
• Phylogenetic analysis of human rhinoviruses collected over four successive years in Sydney, Australia

  2016cites this paper
• WITHDRAWN: Designing and computational validation of microarray probe sets for the diagnosis of viruses of non-human vertebrates.

  2016cites this paper
• Microarray Detection of Viruses

  2016cites this paper
• Enterovirus D68 Infections Associated with Severe Respiratory Illness in Elderly Patients and Emergence of a Novel Clade in Hong Kong

  2016cites this paper
• A polyvalent inactivated rhinovirus vaccine is broadly immunogenic in rhesus macaques

  2016cites this paper
• An Expression of Clinical Significance: Exploring the Human Genome to Understand the Variable Response to Rhinovirus.

  2016cites this paper
• Genomic Signatures of Emerging Viruses: A New Era of Systems Epidemiology

  2016cites this paper
• The Role of Human Coronaviruses in Children Hospitalized for Acute Bronchiolitis, Acute Gastroenteritis, and Febrile Seizures: A 2-Year Prospective Study

  2016cites this paper
• Rhinoviruses and Respiratory Enteroviruses: Not as Simple as ABC

  2016cites this paper
• Respiratory Virus Infections

  2016cites this paper
• Detection of rhinovirus-associated asthma exacerbations using reverse transcriptase - polymerase chain reaction in Egyptian children

  2016cites this paper
• Lung microbiome dynamics in COPD exacerbations

  2016cites this paper
• 50-valent inactivated rhinovirus vaccine is broadly immunogenic in rhesus macaques

  2016cites this paper
• Hospitalizations and outpatient visits for rhinovirus-associated acute respiratory illness in adults.

  2016cites this paper
• Virus/Allergen Interaction in Asthma Exacerbation.

  2015cites this paper
• How rhinovirus infections cause exacerbations of asthma

  2015cites this paper
• Persistent rhinovirus infection in pediatric hematopoietic stem cell transplant recipients with impaired cellular immunity

  2015cites this paper
• Acute Respiratory Illness in Households with Children: Factors associated with Influenza Vaccine Receipt and Viral Interference.

  2015cites this paper
• Rhinoviruses

  2015cites this paper
• Solid and Suspension Microarrays for Microbial Diagnostics

  2015cites this paper
• Study of rationality and utilization pattern of antimicrobials in ear, nose, throat outpatient department of Tertiary Care Hospital, Nanded

  2015cites this paper
• Microbial Genomics and Pathogen Discovery

  2015cites this paper
• Molecular identification and quantification of human rhinoviruses in respiratory samples.

  2015cites this paper
• A study on prescribing patterns of antibiotics for upper respiratory tract infections by general practitioners in rural areas of Assam.

  2015cites this paper
• Infectivity assays of human rhinovirus-A and -B serotypes.

  2015cites this paper
• Detection, Identification and Molecular Variation of Human Enteroviruses

  2015cites this paper
• Growth of human rhinovirus in H1-HeLa cell suspension culture and purification of virions.

  2015cites this paper
• Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) Study. Sarcoidosis Protocol.

  2015cites this paper
• Immunological profiling in chronic rhinosinusitis with nasal polyps reveals distinct VEGF and GM‐CSF signatures during symptomatic exacerbations

  2015cites this paper
• Rhinovirus in the Pathogenesis and Clinical Course of Asthma.

  2015cites this paper
• The Fecal Virome of Children with Hand, Foot, and Mouth Disease that Tested PCR Negative for Pathogenic Enteroviruses

  2015cites this paper
• Genetic diversity of human rhinoviruses in Cambodia during a three-year period reveals novel genetic types

  2015cites this paper
• Oral Human Papillomavirus (HPV) Infection in Healthy Individuals and Patients with Head and Neck Squamous Cell Carcinoma (HNSCC)

  2015cites this paper
• Rôle de l'hémostase dans l'inflammation induite par les virus influenza A

  2014cites this paper
• Coronaviruses, Including Severe Acute Respiratory Syndrome (SARS) and Middle East Respiratory Syndrome (MERS)

  2014cites this paper
• Diagnosis, Discovery and Dissection of Viral Diseases

  2014cites this paper
• Aspergillus spp. colonization in exhaled breath condensate of lung cancer patients from Puglia Region of Italy

  2014influential citation
• Virus-induced modulation of lower airway diseases: Pathogenesis and pharmacologic approaches to treatment

  2014cites this paper
• Expression, crystallization and preliminary crystallographic study of the functional mutant (N60K) of nonstructural protein 9 from Human coronavirus HKU1

  2014cites this paper
• RESPIRATORY TRACT BACTERIAL INFECTION ETIOLOGICAL AGENTS AND SUSCEPTIBILITY TESTING

  2014cites this paper
• Pandemic Influenza Virus 2009 H1N1 and Adenovirus in a High Risk Population of Young Adults: Epidemiology, Comparison of Clinical Presentations, and Coinfection

  2014cites this paper
• Chapter 1 - Applications of Functional Gene Microarrays for Profiling Microbial Communities

  2014cites this paper
• Severity of Rhinovirus Infection in Hospitalized Adults Is Unrelated to Genotype

  2014cites this paper
• Gene Chips in Microbiology-its Various Diagnostic Applications

  2014cites this paper
• The Microbial Detection Array for Detection of Emerging Viruses in Clinical Samples - A Useful Panmicrobial Diagnostic Tool

  2014cites this paper
• Asthmatics with exacerbation during acute respiratory illness exhibit unique transcriptional signatures within the nasal mucosa

  2014cites this paper
• Rhinoviral infection and asthma: the detection and management of rhinoviruses by airway epithelial cells

  2014cites this paper
• Metagenomic Assay for Identification of Microbial Pathogens in Tumor Tissues

  2014cites this paper
• Modulation of airway epithelial antiviral immunity by fungal exposure.

  2014cites this paper
• Asthma and Microbes: A New Paradigm

  2014cites this paper
• Evaluation of diagnostic DNA microarray chips for viral pathogen

  2014cites this paper
• Proposals for the classification of human rhinovirus species A, B and C into genotypically assigned types

  2013influential citation
• Molecular Detection of Respiratory Viruses

  2013cites this paper
• Phylogeny‐based classification of human rhinoviruses detected in hospitalized children with acute lower respiratory infection in Paraguay, 2010–2011

  2013cites this paper
• Human rhinoviruses in INDIS‐study material—evidence for recovery of viable rhinovirus from fecal specimens

  2013influential citation
• The Role of Respiratory Virus Infection in Adults Hospitalised with Acute Respiratory Illness

  2013cites this paper