ArticleGenome biology2017
Dual RNA-seq reveals viral infections in asthmatic children without respiratory illness which are associated with changes in the airway transcriptome.
Article in Genome biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed, 74 citations in OpenAlex.
- Dual-transcriptomic analysis of human nasal transcriptome and microbiome reveals host-bacteria associations in symptomatic respiratory infection.BMC genomics · 2026Article
- Host-microbiome archetypes differentiate infection from pathogen carriage in the human lower airway.Nature communications · 2026Article
- The PRIMERO birth cohort: Design and baseline characteristics.The journal of allergy and clinical immunology. Global · 2025Article
- Metatranscriptomic profiling reveals pathogen and host response signatures of pediatric acute sinusitis and upper respiratory infection.Genome medicine · 2025Article
- Type 1 Immune Responses Related to Viral Infection Influence Corticosteroid Response in Asthma.American journal of respiratory and critical care medicine · 2025Article
- Viral Determinants of Childhood Asthma Exacerbation Severity and Treatment Response.The journal of allergy and clinical immunology. In practice · 2025Article
- Immune horses rapidly increase antileukoproteinase and lack type I interferon secretion during mucosal innate immune responses against equine herpesvirus type 1.Microbiology spectrum · 2024Article
- High burden of viruses and bacterial pathobionts drives heightened nasal innate immunity in children.The Journal of experimental medicine · 2024Article
- Identification of common genes of rhinovirus single/double‑stranded RNA‑induced asthma deterioration by bioinformatics analysis.Experimental and therapeutic medicine · 2024Article
- Analytical challenges in omics research on asthma and allergy: A National Institute of Allergy and Infectious Diseases workshop.The Journal of allergy and clinical immunology · 2024Article
- RNA-Seq Data Processing in Plant-Pathogen Interaction System: A Case Study.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Age-related Differences in the Nasal Mucosal Immune Response to SARS-CoV-2.American journal of respiratory cell and molecular biology · 2022Article
- Repeated injury promotes tracheobronchial tissue stem cell attrition.Stem cells translational medicine · 2021Article
- Heterogeneity in the Response of Different Subtypes ofViruses · 2021Article
- Heterogeneous associations of polyomaviruses and herpesviruses with allergy-related phenotypes in childhood.Annals of allergy, asthma & immunology : official publication of the American College of Allergy, Asthma, & Immunology · 2021Article
- Dual RNA-Seq Enables Full-Genome Assembly of Measles Virus and Characterization of Host-Pathogen Interactions.Microorganisms · 2021Article
- Remodeling of bronchial epithelium caused by asthmatic inflammation affects its response to rhinovirus infection.Scientific reports · 2021Article
- PACIFIC: a lightweight deep-learning classifier of SARS-CoV-2 and co-infecting RNA viruses.Scientific reports · 2021Article
- Immune response to SARS-CoV-2 in the nasal mucosa in children and adults.medRxiv : the preprint server for health sciences · 2021Article
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Corrections and comments
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Authors and funding
14 authors at 5 institutions in 2 countries.
Funding
Abstract
backgroundRespiratory illness caused by viral infection is associated with the development and exacerbation of childhood asthma. Little is known about the effects of respiratory viral infections in the absence of illness. Using quantitative PCR (qPCR) for common respiratory viruses and for two genes known to be highly upregulated in viral infections (CCL8/CXCL11), we screened 92 asthmatic and 69 healthy children without illness for respiratory virus infections.
resultsWe found 21 viral qPCR-positive and 2 suspected virus-infected subjects with high expression of CCL8/CXCL11. We applied a dual RNA-seq workflow to these subjects, together with 25 viral qPCR-negative subjects, to compare qPCR with sequencing-based virus detection and to generate the airway transcriptome for analysis. RNA-seq virus detection achieved 86% sensitivity when compared to qPCR-based screening. We detected additional respiratory viruses in the two CCL8/CXCL11-high subjects and in two of the qPCR-negative subjects. Viral read counts varied widely and were used to stratify subjects into Virus-High and Virus-Low groups. Examination of the host airway transcriptome found that the Virus-High group was characterized by immune cell airway infiltration, downregulation of cilia genes, and dampening of type 2 inflammation. Even the Virus-Low group was differentiated from the No-Virus group by 100 genes, some involved in eIF2 signaling.
conclusionsRespiratory virus infection without illness is not innocuous but may determine the airway function of these subjects by driving immune cell airway infiltration, cellular remodeling, and alteration of asthmogenic gene expression.
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