Publikation: Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis
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The novel betacoronavirus severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) caused a worldwide pandemic (COVID-19) after emerging in Wuhan, China. Here we analyzed public host and viral RNA sequencing data to better understand how SARS-CoV-2 interacts with human respiratory cells. We identified genes, isoforms and transposable element families that are specifically altered in SARS-CoV-2-infected respiratory cells. Well-known immunoregulatory genes including CSF2, IL32, IL-6 and SERPINA3 were differentially expressed, while immunoregulatory transposable element families were upregulated. We predicted conserved interactions between the SARS-CoV-2 genome and human RNA-binding proteins such as the heterogeneous nuclear ribonucleoprotein A1 (hnRNPA1) and eukaryotic initiation factor 4 (eIF4b). We also identified a viral sequence variant with a statistically significant skew associated with age of infection, that may contribute to intracellular host-pathogen interactions. These findings can help identify host mechanisms that can be targeted by prophylactics and/or therapeutics to reduce the severity of COVID-19.
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FERRARINI, Mariana G., Avantika LAL, Rita REBOLLO, Andreas J. GRUBER, Andrea GUARRACINO, Itziar Martinez GONZALEZ, Taylor FLOYD, Daniel Siqueira DE OLIVEIRA, Justin SHANKLIN, Vanessa AGUIAR-PULIDO, 2021. Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis. In: Communications Biology. Springer Nature. 2021, 4(1), 590. eISSN 2399-3642. Available under: doi: 10.1038/s42003-021-02095-0BibTex
@article{Ferrarini2021Genom-53964, year={2021}, doi={10.1038/s42003-021-02095-0}, title={Genome-wide bioinformatic analyses predict key host and viral factors in SARS-CoV-2 pathogenesis}, number={1}, volume={4}, journal={Communications Biology}, author={Ferrarini, Mariana G. and Lal, Avantika and Rebollo, Rita and Gruber, Andreas J. and Guarracino, Andrea and Gonzalez, Itziar Martinez and Floyd, Taylor and de Oliveira, Daniel Siqueira and Shanklin, Justin and Aguiar-Pulido, Vanessa}, note={Article Number: 590} }
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