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Mapping Molecular Gene Signatures Among Respiratory Viruses Based on Large-Scale and Genome-wide Transcriptomics Analysis

Thomas Smith, Mohammed A. Rohaim, View ORCID ProfileMuhammad Munir
doi: https://doi.org/10.1101/2021.10.17.464720
Thomas Smith
Division of Biomedical and Life Sciences, Lancaster University, Lancaster, Lancashire, LA1 4YG United Kingdom
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Mohammed A. Rohaim
Division of Biomedical and Life Sciences, Lancaster University, Lancaster, Lancashire, LA1 4YG United Kingdom
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Muhammad Munir
Division of Biomedical and Life Sciences, Lancaster University, Lancaster, Lancashire, LA1 4YG United Kingdom
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  • ORCID record for Muhammad Munir
  • For correspondence: muhammad.munir@lancaster.ac.uk
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Abstract

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an emerging RNA virus causing COVID-19 disease across the globe. SARS-CoV-2 infected patients exhibit acute respiratory distress syndrome which can be compounded by endemic respiratory viruses and thus highlighting the need to understand the genetic bases of clinical outcome under multiple respiratory infections. In this study, 42 individual datasets and a multi-parametric based selected list of over 12,000 genes against five medically important respiratory viruses (SARS-CoV-2, SARS-CoV-1, influenza A, respiratory syncytial virus (RSV) and rhinovirus were collected and analysed in an attempt to understand differentially regulated gene patterns and to cast genetic markers of individual and multiple co-infections. While a certain cohort of virus-specific genes were regulated (negatively and positively), notably results revealed a greatest correlation among gene regulation by SARS-CoV-2 and RSV. Furthermore, out of analysed genes, the MAP2K5 and NFKBIL1 were specifically and highly upregulated in SARS-CoV-2 infection in vivo or in vitro. In contrast, several genes including GPBAR1 and SC5DL were specifically downregulated in SARS-CoV-2 datasets. Additionally, we catalogued a set of genes that were conserved or differentially regulated across all the respiratory viruses. These finding provide foundational and genome-wide data to gauge the markers of respiratory viral infections individually and under co-infection.

Competing Interest Statement

The authors have declared no competing interest.

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted October 18, 2021.
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Mapping Molecular Gene Signatures Among Respiratory Viruses Based on Large-Scale and Genome-wide Transcriptomics Analysis
Thomas Smith, Mohammed A. Rohaim, Muhammad Munir
bioRxiv 2021.10.17.464720; doi: https://doi.org/10.1101/2021.10.17.464720
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Mapping Molecular Gene Signatures Among Respiratory Viruses Based on Large-Scale and Genome-wide Transcriptomics Analysis
Thomas Smith, Mohammed A. Rohaim, Muhammad Munir
bioRxiv 2021.10.17.464720; doi: https://doi.org/10.1101/2021.10.17.464720

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