Abstract
The upper respiratory tract (URT) is home to a diverse range of microbial species. Respiratory infections disturb the microbial flora in the URT, putting people at risk of secondary infections. The potential dangers and clinical effects of bacterial and fungal coinfections with SARS-CoV-2 support the need to investigate the microbiome of the URT using clinical samples. Mass spectrometry (MS)-based metaproteomics analysis of microbial proteins is a novel approach to comprehensively assess the clinical specimens with complex microbial makeup. The coronavirus that causes severe acute respiratory syndrome (SARS-CoV-2) is responsible for the COVID-19 pandemic resulting in a plethora of microbial coinfections impeding therapy, prognosis, and overall disease management. In this chapter, the corresponding workflows for MS-based shotgun proteomics and metaproteomic analysis are illustrated.
| Original language | English (US) |
|---|---|
| Title of host publication | Methods in Molecular Biology |
| Publisher | Humana Press Inc. |
| Pages | 165-185 |
| Number of pages | 21 |
| State | Published - 2024 |
Publication series
| Name | Methods in Molecular Biology |
|---|---|
| Volume | 2820 |
| ISSN (Print) | 1064-3745 |
| ISSN (Electronic) | 1940-6029 |
Bibliographical note
Publisher Copyright:© The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature 2024.
Keywords
- COVID-19
- Galaxy
- Mass spectrometry
- Metaproteomics
- SARS-CoV-2