Label-Free Quantitative Proteomics of Oral Microbial Communities.
| Autor: | Mohammed MMA; Department of Oral and Craniofacial Health Sciences, College of Dental Medicine, University of Sharjah, Sharjah, United Arab Emirates. mmmohammed@sharjah.ac.ae.; Research Institute for Medical and Health Sciences, University of Sharjah, Sharjah, United Arab Emirates. mmmohammed@sharjah.ac.ae., Bruun JA; Proteomics and Metabolomics Core Facility (PRiME), Department of Medical Biology, UiT The Arctic University of Norway, Tromsø, Norway., Pettersen VK; Research Group for Host-Microbe Interaction, Department of Medical Biology, UiT The Arctic University of Norway, Tromsø, Norway.; Pediatric Research Group, Department of Clinical Medicine, UiT The Arctic University of Norway, Tromsø, Norway.; Centre for New Antibacterial Strategies, UiT The Arctic University of Norway, Tromsø, Norway. |
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| Jazyk: | angličtina |
| Zdroj: | Methods in molecular biology (Clifton, N.J.) [Methods Mol Biol] 2024; Vol. 2820, pp. 155-164. |
| DOI: | 10.1007/978-1-0716-3910-8_14 |
| Abstrakt: | The oral cavity is a habitat for different microorganisms, of which bacteria are best described. Studying different bacterial taxa and their proteins is crucial to understanding their interactions with the host and other microbes. Also, for bacteria with virulence potential, identifying novel antigenic proteins is essential to finding candidates for the development of vaccines.Here, a workflow for gel-free and label-free protein analysis of oral bacterial species grown in vitro as a biofilm and a planktonic culture is described. Details on cultivation, protein extraction and digestion, peptide cleanup, LC-MS/MS run parameters, and subsequent bioinformatics analysis are included. Challenging steps in the workflow, such as growing different types of bacteria and selecting a suitable protein database, are also discussed. This protocol provides a valuable guide for metaproteomic experiments using multi-species models of oral bacteria. (© 2024. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.) |
| Databáze: | MEDLINE |
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