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Proteomic deconvolution reveals distinct immune cell fractions in different body sites in SARS-Cov-2 positive individuals

Article scientifique 2022 Anglais

Résumé

Abstract Background Severe acute respiratory syndrome coronavirus 2 ( SARS-CoV-2) continues to be a significant public health challenge globally. SARS-CoV-2 is a novel virus, and what constitutes immunological responses in different human body sites in infected individuals is yet to be presented. We set to determine the various immune cell fractions in gargle solution, bronchoalveolar lavage fluid, nasopharyngeal, and urine samples post-SARS-CoV-2 infection in humans. Materials and methods We downloaded proteomics data from ( https://www.ebi.ac.uk/pride/ ) with the following identifiers: PXD019423, n=3 (gargle solution), PXD018970, n=15 (urine), PXD022085, n=5 (Bronchoalveolar lavage fluid), PXD022889, n=18 (nasopharyngeal). MaxQuant was used for the peptide spectral matching using humans, and SARS-CoV-2 was downloaded from the UniProt database (Access date 9 th January 2022). The protein count matrix was extracted from the proteins group file and used as an input for the cibersort for the immune cells fraction determination. Results The body of individuals infected with the SARS-CoV-2 virus is characterized by different fractions of immune cells in Bronchoalveolar lavage fluid (BALF), nasopharyngeal, urine, and gargle solution. BALF has more abundant memory B cells, CD8, activated mast cells, and resting macrophages than urine, nasopharyngeal, and gargle solution. Our analysis also demonstrates that each body site comprises different immune cell fractions post-SARS-CoV-2 infection in humans. Conclusion Different body sites are characterized by different immune cells fractions in SARS-CoV-2 infected individuals. The findings in this study can inform public health policies and health professionals on treatment strategies and drive SARS-CoV-2 diagnosis procedures.

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Okendo, J., Okanda, D., Mwangi, P., Nyaga, M. (2022). Proteomic deconvolution reveals distinct immune cell fractions in different body sites in SARS-Cov-2 positive individuals. https://doi.org/10.1101/2022.01.21.22269631

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Auteur(s)

Javan Okendo David Okanda Peter N. Mwangi Martin M. Nyaga

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