List of Contributors xxi
Preface xxix
Part I MALDI-TOF Mass Spectrometry 1
1 A Paradigm Shift from Research to Front?]Line Microbial Diagnostics in MALDI?]TOF and LC?]MS/MS: A Laboratory's Vision and Relentless Resolve to Help Develop and Implement This New Technology amidst Formidable Obstacles 3
Haroun N. Shah and Saheer E. Gharbia
2 Criteria for Development of MALDI?]TOF Mass Spectral Database 39
Markus Kostrzewa and Thomas Maier
3 Applications of MALDI?]TOF Mass Spectrometry in Clinical Diagnostic Microbiology 55
Onya Opota, Guy Prod'hom and Gilbert Greub
4 The Challenges of Identifying Mycobacterium to the Species Level using MALDI?]TOF MS 93
5 Transformation of Anaerobic Microbiology since the Arrival of MALDI?]TOF Mass Spectrometry 123
Elisabeth Nagy, Mariann Abrok, Edith Urban, A.C.M. Veloo, Arie Jan van Winkelhoff, Itaru Dekio, Saheer E. Gharbia and Haroun N. Shah
6 Differentiation of Closely Related Organisms using MALDI?]TOF MS 147
Mark A. Fisher
7 Identification of Species in Mixed Microbial Populations using MALDI?]TOF MS 167
Pierre Mahe, Maud Arsac, Nadine Perrot, Marie?]Helene Charles, Patrick Broyer, Jay Hyman, John Walsh, Sonia Chatellier, Victoria Girard, Alex van Belkum, and Jean?]Baptiste Veyrieras
8 Microbial DNA Analysis by MALDI?]TOF Mass Spectrometry 187
9 Impact of MALDI?]TOF MS in Clinical Mycology; Progress and Barriers in Diagnostics 211
Cledir R. Santos, Elaine Francisco, Mariana Mazza, Ana Carolina B. Padovan, Arnaldo Colombo and Nelson Lima
10 Development and Application of MALDI?]TOF for Detection of Resistance Mechanisms 231
Stefan Zimmermann and Irene Burckhardt
11 Discrimination of Burkholderia Species, Brucella Biovars, Francisella tularensis and Other Taxa at the Subspecies Level by MALDI?]TOF Mass Spectrometry 249
Axel Karger
12 MALDI?]TOF?]MS Based on Ribosomal Protein Coding in S10?]spc?]alpha Operons for Proteotyping 269
Hiroto Tamura
Part II Tandem MS/MS-Based Approaches to Microbial Characterization 311
13 Tandem Mass Spectrometry Analysis as an Approach to Delineate Genetically Related Taxa 313
Raju V. Misra, Tom Gaulton, Nadia Ahmod, Min Fang, Martin Hornshaw, Jenny Ho, Saheer E. Gharbia and Haroun N. Shah
14 Mapping of the Proteogenome of Clostridium difficile Isolates of Varying Virulence 379
Caroline H. Chilton, Saheer E. Gharbia, Raju V. Misra, Min Fang, Ian R. Poxton, Peter S. Borriello and Haroun N. Shah
15 Determination of Antimicrobial Resistance using Tandem Mass
Spectrometry 399
Ajit J. Shah, Vlad Serafim, Zhen Xu, Hermine Mkrtchyan and Haroun N. Shah
16 Proteotyping: Tandem Mass Spectrometry Shotgun Proteomic Characterization and Typing of Pathogenic Microorganisms 419
Roger Karlsson, Lucia Gonzales?]Siles, Fredrik Boulund, Asa Lindgren, Liselott Svensson?]Stadler, Anders Karlsson, Erik Kristiansson and Edward R.B. Moore
17 Proteogenomics of Pseudomonas aeruginosa in Cystic Fibrosis Infections 451
Liang Yang and Song Lin Chua
18 Top?]Down Proteomics in the Study of Microbial Pathogenicity 493
Joseph Gault, Egor Vorontsov, Mathieu Dupre, Valeria Calvaresi, Magalie Duchateau, Diogo B. Lima, Christian Malosse and Julia Chamot?]Rooke
19 Tandem Mass Spectrometry in Resolving Complex Gut Microbiota Functions 505
Carolin Kolmeder, Kaarina Lahteenmaki, Pirjo Wacklin, Annika Kotovuori, Ilja Ritamo, Jaana Matto, Willem M. de Vos, and Leena Valmu
20 Proteogenomics of Non?]model Microorganisms 529
Jean Armengaud
21A Analysis of MALDI?]TOF MS Spectra using the BioNumerics Software 539
Katleen Vranckx, Katrien De Bruyne and Bruno Pot
21B Subtyping of Staphylococcus spp. Based upon MALDI?]TOF MS Data Analysis 563
Zhen Xu, Ali Olkun, Katleen Vranckx, Hermine V. Mkrtchyan, Ajit J. Shah, Bruno Pot, Ronald R. Cutler and Haroun N. Shah
21C Elucidating the Intra?]Species Proteotypes of Pseudomonas aeruginosa from Cystic Fibrosis 579
Ali Olkun, Ajit J. Shah and Haroun N. Shah
References 588
Index 593
