Host-Viral Infection Maps Reveal Signatures of Severe COVID-19 Patients
By Pierre Bost, A. Giladi, Yang Liu, Yanis Bendjelal, Gang Xu, Eyal David, R. Blecher-Gonen, Merav Cohen, Chiara Medaglia, Hanjie Li and 5 more. Cell, 2020
452 citations recorded by the source corpus.
Viruses are a constant threat to global health as highlighted by the current COVID-19 pandemic. Currently, lack of data underlying how the human host interacts with viruses, including the SARS-CoV-2 virus, limits effective therapeutic intervention. We introduce Viral-Track, a computational method that globally scans unmapped single-cell RNA sequencing (scRNA-seq) data for the presence of viral RNA, enabling transcriptional cell sorting of infected versus bystander cells. We demonstrate the sensitivity and specificity of Viral-Track to systematically detect viruses from multiple models of infection, including hepatitis B virus, in an unsupervised manner. Applying Viral-Track to bronchoalveloar-lavage samples from severe and mild COVID-19 patients reveals a dramatic impact of the virus on the immune system of severe patients compared to mild cases. Viral-Track detects an unexpected co-infection of the human metapneumovirus, present mainly in monocytes perturbed in type-I interferon (IFN)-signaling. Viral-Track provides a robust technology for dissecting the mechanisms of viral-infection and pathology.
Subfields: Epidemiology, Infectious Diseases, Molecular Biology
View Paper: https://www.semanticscholar.org/paper/e0c45240450f614dab426bf68728c0eabd2dfcea
Citations in the corpus
- Elevated Calprotectin and Abnormal Myeloid Cell Subsets Discriminate Severe from Mild COVID-19 (2020, unknown): “SARS-CoV-2mRNA is detectable in lungmonocytes/ macrophages of severe COVID-19 patients (Bost et al., 2020), but its ability to enter these cells in the peripheral blood and activate”
- COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas (2021, unknown): “Consistently, independent scRNA-seq studies of COVID-19 patients also identified SARS-CoV-2 RNAs in neutrophils and macrophages (Bost et al., 2020; Chua et al., 2020).”
- Elevated Glucose Levels Favor SARS-CoV-2 Infection and Monocyte Response through a HIF-1α/Glycolysis-Dependent Axis (2020, unknown): “Using publicly available single-cell RNA sequencing (RNA-seq) data frombronchoalveolar lavage (BAL) ofmild and severe COVID-19 patients and controls (Bost et al., 2020), we identified that several genes associated with ‘‘interferon a/b signaling pathway’’ are upregulated in mild and severe COVID-19 ”