Host Expression Profiling From Diagnostic Coronavirus Disease 2019 Swabs Associates Upper Respiratory Tract Immune Responses With Radiologic Lung Pathology and Clinical Severity.

Autor: Kozak RA; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada.; Shared Hospital Laboratory, Toronto, Ontario, Canada.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada., Salvant E; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Chang V; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Oikonomou A; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Biondi MJ; School of Nursing, York University, Toronto, Ontario, Canada.; Toronto Centre for Liver Disease, University Health Network, Toronto, Ontario, Canada., Feld JJ; Toronto Centre for Liver Disease, University Health Network, Toronto, Ontario, Canada., Armstrong S; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Wasif S; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Mubareka S; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada., Nirmalarajah K; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Seth A; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada.; Precision Diagnostics and Therapeutics Program, Department of Laboratory Medicine and Molecular Diagnostics, Sunnybrook Health Sciences Centre, Toronto, Ontario, Canada., Amemiya Y; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada., Wang C; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada.; Department of Immunology, University of Toronto, Toronto, Ontario, Canada., Tsui H; Biological Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada.; Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada.; Precision Diagnostics and Therapeutics Program, Department of Laboratory Medicine and Molecular Diagnostics, Sunnybrook Health Sciences Centre, Toronto, Ontario, Canada.; Department of Immunology, University of Toronto, Toronto, Ontario, Canada.
Jazyk: angličtina
Zdroj: Open forum infectious diseases [Open Forum Infect Dis] 2023 Apr 13; Vol. 10 (5), pp. ofad190. Date of Electronic Publication: 2023 Apr 13 (Print Publication: 2023).
DOI: 10.1093/ofid/ofad190
Abstrakt: Background: COVID-19 presents with a breadth of symptomatology including a spectrum of clinical severity requiring intensive care unit (ICU) admission. We investigated the mucosal host gene response at the time of gold standard COVID-19 diagnosis using clinical surplus RNA from upper respiratory tract swabs.
Methods: Host response was evaluated by RNA-sequencing, and transcriptomic profiles of 44 unvaccinated patients including outpatients and in-patients with varying levels of oxygen supplementation were included. Additionally, chest X-rays were reviewed and scored for patients in each group.
Results: Host transcriptomics revealed significant changes in the immune and inflammatory response. Patients destined for the ICU were distinguished by the significant upregulation of immune response pathways and inflammatory chemokines, including cxcl2 which has been linked to monocyte subsets associated with COVID-19 related lung damage. In order to temporally associate gene expression profiles in the upper respiratory tract at diagnosis of COVID-19 with lower respiratory tract sequalae, we correlated our findings with chest radiography scoring, showing nasopharygeal or mid-turbinate sampling can be a relevant surrogate for downstream COVID-19 pneumonia/ICU severity.
Conclusions: This study demonstrates the potential and relevance for ongoing study of the mucosal site of infection of SARS-CoV-2 using a single sampling that remains standard of care in hospital settings. We highlight also the archival value of high quality clinical surplus specimens, especially with rapidly evolving COVID-19 variants and changing public health/vaccination measures.
Competing Interests: Potential conflicts of interest. All authors: No reported conflicts.
(© The Author(s) 2023. Published by Oxford University Press on behalf of Infectious Diseases Society of America.)
Databáze: MEDLINE
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