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A single-cell expression map of human coronavirus entry factors

View ORCID ProfileManvendra Singh, View ORCID ProfileVikas Bansal, View ORCID ProfileCédric Feschotte
doi: https://doi.org/10.1101/2020.05.08.084806
Manvendra Singh
1Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
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  • For correspondence: ms3559@cornell.edu Vikas.Bansal@dzne.de cf458@cornell.edu
Vikas Bansal
2Biomedical Data Science and Machine Learning Group, DZNE, Tübingen, Germany
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  • For correspondence: ms3559@cornell.edu Vikas.Bansal@dzne.de cf458@cornell.edu
Cédric Feschotte
1Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
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  • For correspondence: ms3559@cornell.edu Vikas.Bansal@dzne.de cf458@cornell.edu
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Abstract

To predict the tropism of human coronaviruses, we profile 28 SARS-CoV-2 and coronavirus-associated receptors and factors (SCARFs) using single-cell RNA-sequencing data from a wide range of healthy human tissues. SCARFs include cellular factors both facilitating and restricting viral entry. Among adult organs, enterocytes and goblet cells of the small intestine and colon, kidney proximal tubule cells, and gallbladder basal cells appear most permissive to SARS-CoV-2, consistent with clinical data. Our analysis also suggests alternate entry paths for SARS-CoV-2 infection of the lung, central nervous system, and heart. We predict spermatogonial cells and prostate endocrine cells, but not ovarian cells, to be highly permissive to SARS-CoV-2, suggesting male-specific vulnerabilities. Early stages of embryonic and placental development show a moderate risk of infection. The nasal epithelium looks like another battleground, characterized by high expression of both promoting and restriction factors and a potential age-dependent shift in SCARF expression. Lastly, SCARF expression appears broadly conserved across human, chimpanzee and macaque organs examined. Our study establishes an important resource for investigations of coronavirus biology and pathology.

Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵# Lead contact Cedric Feschotte, Department of Molecular Biology and Genetics Cornell University, 216 Biotechnology Building, 526 Campus Road, Ithaca, NY 14853-2703

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 May 09, 2020.
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A single-cell expression map of human coronavirus entry factors
Manvendra Singh, Vikas Bansal, Cédric Feschotte
bioRxiv 2020.05.08.084806; doi: https://doi.org/10.1101/2020.05.08.084806
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A single-cell expression map of human coronavirus entry factors
Manvendra Singh, Vikas Bansal, Cédric Feschotte
bioRxiv 2020.05.08.084806; doi: https://doi.org/10.1101/2020.05.08.084806

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