Ian Humphery-Smith & Michael Hecker 
Microbial Proteomics 
Functional Biology of Whole Organisms

Discover important lessons learned about whole organism biology
via microbial proteomics

This text provides an exhaustive analysis and presentation of
current research in the field of microbial proteomics, with an
emphasis on new developments and applications and future directions
in research. The editors and authors show how and why the relative
simplicity of microbes has made them attractive targets for
extensive experimental manipulation in a quest for both improved
disease prevention and treatment and an improved understanding of
whole organism functional biology. In particular, the text
demonstrates how microbial proteomic analyses can aid in drug
discovery, including identification of new targets, novel
diagnostic markers, and lead optimization.

Each chapter is written by one or more leading experts in the
field and carefully edited to ensure a consistent and thorough
approach throughout. Methods, technologies, and tools associated
with the most promising approaches are stressed. Key topics covered
include:

* Microbial pathogenesis at the proteome level

* Whole cell modeling

* Structural proteomics and computational analysis

* Biomolecular interactions

* Physiological proteomics

* Metabolic reconstruction using proteomics data

While presenting the practical utility of proteomics data, the
text is also clear on the field’s current limitations, pointing to
areas where further investigation is needed.

Offering a state-of-the-art perspective from internationally
recognized experts, this text is ideally suited for researchers and
students across the gamut of genomic sciences, including
biochemistry, microbiology, molecular biology, genetics, biomedical
and pharmaceutical sciences, biotechnology, and veterinary
science.

Table of Content

PREFACE.

ACKNOWLEDGMENTS.

CONTRIBUTORS.

PART I: GENERAL PROTEOMICS OF MICROORGANISMS/MODELORGANISMS.

1. Holistic Biology of Microorganisms: Genomics, Transcriptomics, and Proteomics (Valerie Wasinger).

2. Strategies for Measuring Dynamics: The Temporal Component of Proteomics (Robert J. Beynon and Julie M. Pratt).

3. Quest for Complete Proteome Coverage (C. David O’Connor, Ian N. Clarke, and Paul Skipp).

4. Proteome of Mycoplasma pneumoniae (Richard Herrmann and Thomas Ruppert).

5. Proteomics of Archaea (Ricardo Cavicchioli, Amber Goodchild, and Mark Raftery).

PART II: PROTEOMICS AND CELL PHYSIOLOGY.

6. Elucidation of Mechanisms of Acid Stress in Listeriamonocytogenes by Proteomic Analysis (Luu Phan-Thanh and Lothar Jänsch).

7. Oxidation of Bacterial Proteome in Response to Starvation(Thomas Nyström).

8. Tale of Two Metal Reducers: Comparative Proteome Analysis of Geobacter sulferreducens PCA and Shewanella oneidensis MR-1(Carol S. Giometti).

9. AMT Tag Approach to Proteomic Characterization of Deinococcusradiodurans and Shewanella oneidensis (Mary S. Lipton, Margaret F. Romine, Matthew E. Monroe, Dwayne A. Elias, Ljiljana Pasa-Tolic, Gordon A. Anderson, David J. Anderson, Jim Fredrickson, Kim K.Hixson, Christophe Masselon, Heather Mottaz, Nikola Tolic, and Richard D. Smith).

PART III: PHYSIOLOGICAL PROTEOMICS OF INDUSTRIALBACTERIA.

10. Proteomics of Corynebacterium glutamicum: Essential Industrial Bacterium (Andreas Burkovski).

11. Proteomics of Lactococcus lactis: Phenotypes for a Domestic Bacterium (Mogens Kilstrup).

12. Proteomic Survey through Secretome of Bacillus subtilis(Haike Antelmann, Jan Maarten van Dijl, Sierd Bron, and Michael Hecker).

PART IV: PROTEOMICS OF PATHOGENIC MICROORGANISMS.

13. Analyzing Bacterial Pathogenesis at Level of Proteome(Phillip Cash).

14. Unraveling Edwardsiella tarda Pathogenesis Using the Proteomics Approach (P. S. Srinivasa Rao, Yuen Peng Tan, Jun Zheng, and Ka Yin Leung).

15. Structural Proteomics and Computational Analysis of a Deadly Pathogen: Combating Mycobacterium tuberculosis from Multiple Fronts(Michael Strong and Celia W. Goulding).

16. Proteomic Studies of Plant-Pathogenic Oomycetes and Fungi(Catherine R. Bruce, Pieter van West, and Laura J.Grenville-Briggs).

17. Candida albicans Biology and Pathogenicity: Insights from Proteomics (Aida Pitarch, Ce´sar Nombela, and Concha Gil).

18. Contributions of Proteomics to Diagnosis, Treatment, and Prevention of Candidiasis (Aida Pitarch, Ce´sar Nombela, and Concha Gil).

19. Identification of Protein Candidates for Developing Bacterial Ghost Vaccines against Brucella (Vito G. Delvecchio, Tim Alefantis, Rodolfo A. Ugalde, Diego Comerci, Maria Ines Marchesini, Akbar Khan, Werner Lubitz, and Cesar V. Mujer).

20. Genomics and Proteomics in Reverse Vaccines (Guido Grandi).

PART V: PROTEOME DATABASES, BIOINFORMATICS, AND BIOCHEMICALMODELING.

21. Databases and Resources for in silico Proteome Analysis(Manuela Pruess, Paul Kersey, Tamara Kulikova, and Rolf Apweiler).

22. Interspecies and Intraspecies Comparison of Microbial Proteins: Learning about Gene Ancestry, Protein Function, and Species Life Style (Bernard Labedan and Olivier Lespinet).

23. Cellular Kinetic Modeling of the Microbial Metabolism(Igor I. Goryanin, Galina V. Lebedeva, Ekaterina A.Mogilevskaya, Eugeniy A. Metelkin, and Oleg V. Demin).

INDEX.

About the author

IAN HUMPHERY-SMITH, PHD, is the Founding Chair of the
Department of Pharmaceutical Proteomics at Utrecht University. Dr.
Humphery-Smith has served as director of the Centre for Proteome
Research and Gene-Product Mapping and served as managing director
and chief scientific officer of Glaucus Proteomics BV.

MICHAEL HECKER, PHD, is Professor of Microbiology and
Head of the Institute for Microbiology at
Ernst-Moritz-Arndt-University of Greifswald in Germany. Dr. Hecker
is currently Vice Chair of the International Union of
Microbiological Societies (IUMS).