Microbial Proteomics, Softcover reprint of the original 1st ed. 2018 Methods and Protocols Methods in Molecular Biology Series, Vol. 1841

1. Filter-Aided Sample Preparation for Proteome Analysis

            Jacek R. Wiśniewski

2. Protein Enrichment from Highly Dilute Samples with StrataClean

            Florian Bonn and Andreas Otto

Part II: Subcellular Fractionation

3. Membrane Proteomics in Gram-Positive Bacteria: Two Complementary Approaches to Target the Hydrophobic Species of Proteins

            Susanne Sievers

4. Enrichment of Cell Surface-Associated Proteins in Gram⁺ Bacteria by Biotinylation or Trypsin Shaving for Mass Spectrometry Analysis

            Florian Bonn, Sandra Maaß, and Jan Maarten van Dijl

5. Preparation of Bacterial Magnetosomes for Proteome Analysis

            Oliver Raschdorf, Dirk Schüler, and René Uebe

6. Analysis of Legionella Metabolism by Pathogen Vacuole Proteomics

            Christian Manske, Ivo Finsel, Christine Hoffmann, and Hubert Hilbi

Part III: Protein Quantification

7. Detection and Identification of Low-Abundant Proteins Using HPE Gels, Fluorescent Stains, and MALDI-ToF-ToF-MS

            Martin Moche, Dirk Albrecht, Reiner Westermeier, and Knut Büttner

8. Applications of Difference Gel Electrophoresis (DIGE) on the Study of Microorganisms

            Kathleen Trautwein and Ralf Rabus

9. Proteomic Signatures in Staphylococcus aureus

            Susanne Engelmann and Stephan Fuchs

10. How to Assess Protein Stability: Half-Life Determination of a Regulatory Protein in Bacillus subtilis

            Alexander Reder, Stephan Michalik, and Ulf Gerth

11. Absolute Protein Quantification Using AQUA-Calibrated 2D-PAGE

            Sandra Maaß

12. Sulfur-³⁴S and ³⁶S Stable Isotope Labeling of Amino Acids for Quantification (SULAQ34/36) of Proteome Analyses

            Florian-Alexander Herbst, Nico Jehmlich, Martin von Bergen, and Frank Schmidt

13. Metabolic Labeling of Microorganisms with Stable Heavy Nitrogen Isotopes (¹⁵N)

            Andreas Otto

14. Next-Generation Trapping of Protease Substrates by Label-Free Proteomics

            Claudia Lindemann, Nikolas Thomanek, Katja Kuhlmann, Helmut E. Meyer, Katrin Marcus, and Franz Narberhaus

15. In Vivo Proteomics Approaches for the Analysis of Bacterial Adaptation Reactions in Host-Pathogen Settings

            Henrike Pförtner, Maren Depke, Kristin Surmann, Frank Schmidt, and Uwe Völker

Part IV: Analysis of Post Translational Protein Modifications

16. Phosphopeptide Enrichment from Bacterial Samples Utilizing Titanium Oxide Affinity Chromatography

            Boumediene Soufi, Christoph Täumer, Maja Semanjski, and Boris Macek

17. Phosphoproteomics in Microbiology: Protocols for Studying Streptomyces coelicolor Differentiation

            Angel Manteca, Beatriz Rioseras, Adelina Rogowska-Wrzesinska, and Ole N. Jensen

18. Thiol-Redox Proteomics to Study Reversible Protein Thiol Oxidations in Bacteria

            Martina Rossius, Falko Hochgräfe, and Haike Antelmann

Part V: Metaproteomics

19. Sequential Isolation of DNA, RNA, Protein, and Metabolite Fractions from Murine Organs and Intestinal Contents for Integrated Omics of Host-Microbiota Interactions

            Pranjul Shah, Emilie E.L. Muller, Laura A. Lebrun, Linda Wampach, and Paul Wilmes

20. Utilization of a Detergent-Based Method for Direct Microbial Cellular Lysis / Proteome Extraction from Soil Samples for Metaproteomics Studies

            Karuna Chourey and Robert L. Hettich

21. Sample Preparation for Metaproteome Analyses of Soil and Leaf Litter

            Katharina M. Keiblinger and Katharina Riedel

22. Centrifugation-Based Enrichment of Bacterial Cell Populations for Metaproteomic Studies on Bacteria-Invertebrate Symbioses

            Tjorven Hinzke, Manuel Kleiner, and Stephanie Markert

Includes cutting-edge methods and protocols for the study of microbial proteomics

Provides step-by-step detail essential for reproducible results

Contains key notes and implementation advice from the experts