{"product_id":"mass-spectrometry-for-microbial-proteomics-hardback-9780470681992","title":"Mass Spectrometry for Microbial Proteomics (Hardback) 9780470681992","description":"\u003cfont face=\"Georgia\"\u003e\r\n\u003cp\u003e\u003cfont size=\"6\"\u003eMass Spectrometry for Microbial Proteomics\u003c\/font\u003e\u003cbr\u003e\r\n\r\n\r\n\r\n\r\n\r\n\u003c\/p\u003e\n\u003cp\u003e\u003cfont size=\"4\"\u003eHaroun N. Shah (Edited by), H Shah (Author), Saheer Gharbia (Edited by)\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e9780470681992, Wiley\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eHardback, published 16 July 2010\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003e534 pages\u003cbr\u003e25.2 x 17.5 x 2.9 cm, 1.143 kg\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\r\n\u003cp align=\"justify\"\u003e\u003cem\u003e\u003cfont size=\"3\"\u003e\u003cp\u003e“Summary Mass Spectrometry of Microbial Proteomics provides an authoritative guide to the expanding field of microbial proteomics.”  (\u003ci\u003eAnal Bioanal Chem\u003c\/i\u003e, 2011)\u003c\/p\u003e \u003cp\u003e \u003c\/p\u003e\u003c\/font\u003e\u003c\/em\u003e\u003c\/p\u003e\r\n\r\n\u003cp align=\"justify\"\u003e\u003cstrong\u003e\u003cfont size=\"3\"\u003eNew advances in proteomics, driven largely by developments in mass spectrometry, continue to reveal the complexity and diversity of pathogenic mechanisms among microbes that underpin infectious diseases. Therefore a new era in medical microbiology is demanding a rapid transition from current procedures to high throughput analytical systems for the diagnosis of microbial pathogens.\u003cbr\u003e   \u003cp\u003eThis book covers the broad microbiological applications of proteomics and mass spectrometry. It is divided into six sections that follow the general progression in which most microbiology laboratories are approaching the subject –Transition, Tools, Preparation, Profiling by Patterns, Target Proteins, and Data Analysis.\u003c\/p\u003e\u003c\/font\u003e\u003c\/strong\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003ePreface  \u003cp\u003e\u003c\/p\u003e List of contributors \u003cb\u003eMicrobial Characterisation\u003cbr\u003e the Transition from Conventional Methods to Proteomics.\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e 1) CHANGING CONCEPTS IN THE CHARACTERISATION OF MICROBES AND THE INFLUENCE OF MASS SPECTROMETRY  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eHaroun Shah et al\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.1 Background and early attempts to use mass spectrometry on microbes.  \u003cp\u003e\u003c\/p\u003e 1.2 Characterisation of microorganisms by MALDI-TOF mass spectrometry\u003cbr\u003e from initial ideas to the development of the first comprehensive database.  \u003cp\u003e\u003c\/p\u003e 1.3 Characterisation of microorganisms from their intracellular\/membrane bound protein profiles using affinity capture with particular reference to SELDI-TOF-MS.  \u003cp\u003e\u003c\/p\u003e 1.4 Comparative analysis of proteomes of diverse strains within a species\u003cbr\u003e use of 2-d fluorescence difference gel electrophoresis (dige).  \u003cp\u003e\u003c\/p\u003e 1.5 Searching for low abundant and low molecular weight proteins and peptides using nanoparticles as a selective and concentration probes for MALDI-TOF-MS analysis.  \u003cp\u003e\u003c\/p\u003e 2) MICROBIAL PHYLOGENY AND EVOLUTION BASED ON PROTEIN SEQUENCES (THE CHANGE FROM TARGETED GENES TO PROTEINS)  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eRadhey Gupta\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 2.1 Abstract  \u003cp\u003e\u003c\/p\u003e 2.2 Microbial phylogeny: overview and key unresolved issues  \u003cp\u003e\u003c\/p\u003e 2.3 New protein-based molecular markers for systematic and evolutionary studies  \u003cp\u003e\u003c\/p\u003e 2.4 Molecular markers elucidating the evolutionary relationships among alpha (a)-proteobacteria  \u003cp\u003e\u003c\/p\u003e 2.5 Molecular markers for the bacteroidetes-chlorobi phyla  \u003cp\u003e\u003c\/p\u003e 2.6 Branching order and interrelationships among bacterial phyla  \u003cp\u003e\u003c\/p\u003e 2.7 Importance of protein markers for discovering unique properties for different groups of bacteria  \u003cp\u003e\u003c\/p\u003e 2.8 Concluding remarks  \u003cp\u003e\u003c\/p\u003e 2.9 Acknowledgements  \u003cp\u003e\u003c\/p\u003e 2.10 References  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e2: PROTEOMICS TOOLS AND BIOMARKER DISCOVERY.\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e 3) OVERVIEW OF THE PROTEOMIC TOOLS AND IT LINKS TO GENOMICS  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eRaju Misra.\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 3.1 Protein identification  \u003cp\u003e\u003c\/p\u003e 3.2 Peptide Mass Fingerprint (PMF)  \u003cp\u003e\u003c\/p\u003e 3.3 Peptide Fragment Fingerprint (PFF)  \u003cp\u003e\u003c\/p\u003e 3.4 Peptide sequencing  \u003cp\u003e\u003c\/p\u003e 3.5 False discovery rates (FDR)  \u003cp\u003e\u003c\/p\u003e 3.6 Validating protein identifications  \u003cp\u003e\u003c\/p\u003e 3.7 Reference Database  \u003cp\u003e\u003c\/p\u003e 3.8 Data storage  \u003cp\u003e\u003c\/p\u003e 3.9 Biomarker discovery  \u003cp\u003e\u003c\/p\u003e 3.10 Integrating genomics with proteomics  \u003cp\u003e\u003c\/p\u003e 3.11 Reference List  \u003cp\u003e\u003c\/p\u003e 4) HIGH THROUGHPUT BIOMARKER DISCOVERY IN MICROORGANISMS  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eMing Fang\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 4.1 MALDI vs ESI  \u003cp\u003e\u003c\/p\u003e 4.2 Tandem Mass Spectrometry and Hybrid Mass Spectrometers  \u003cp\u003e\u003c\/p\u003e 4.3 Fragmentation in Tandem Mass Spectrometry  \u003cp\u003e\u003c\/p\u003e Proteomic Strategies for Protein Identification  \u003cp\u003e\u003c\/p\u003e 1. Bottom-up Proteomics  \u003cp\u003e\u003c\/p\u003e 2. Top-down Proteomics  \u003cp\u003e\u003c\/p\u003e Multidimensional Protein Identification  \u003cp\u003e\u003c\/p\u003e Mass Spectrometry Based Targeted Protein Quantification and Biomarker Discovery  \u003cp\u003e\u003c\/p\u003e Selected Reaction Monitoring  \u003cp\u003e\u003c\/p\u003e Conclusions  \u003cp\u003e\u003c\/p\u003e 5) MALDI MASS SPECTROMETRY IMAGING, A NEW FRONTIER IN BIOSTRUCTURAL TECHNIQUES: APPLICATIONS IN BIOMEDICINE \u003ci\u003eSimona Francese and Malcolm R. Clench\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 5.1 Introduction  \u003cp\u003e\u003c\/p\u003e 5.2 Practical Aspects of MALDI-MSI  \u003cp\u003e\u003c\/p\u003e 5.2 Applications  \u003cp\u003e\u003c\/p\u003e 5.3 Microbial molecular investigation by MALDI TOF MS  \u003cp\u003e\u003c\/p\u003e 5.4 Conclusions  \u003cp\u003e\u003c\/p\u003e 5.5 References  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e3: PROTEIN SAMPLES PREPARATION TECHNIQUES\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e CONVENTIONAL APPROACHES FOR SAMPLE PREPARATION FOR LIQUID  \u003cp\u003e\u003c\/p\u003e CHROMATOGRAPHY AND TWO-DIMENSIONAL GEL ELECTROPHORESIS  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eVesela Encheva and Robert Parker\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 6.1 Introduction  \u003cp\u003e\u003c\/p\u003e 6.2 Cell lysis methods  \u003cp\u003e\u003c\/p\u003e 6.3 Sample preparation for 2D GE  \u003cp\u003e\u003c\/p\u003e 6.4 Fractionation strategies  \u003cp\u003e\u003c\/p\u003e 6.5 Sample preparation for Liquid Chromatography coupled to mass  \u003cp\u003e\u003c\/p\u003e 6.6 Conclusion  \u003cp\u003e\u003c\/p\u003e 6.7 Reference list  \u003cp\u003e\u003c\/p\u003e 7) ISOLATION AND PREPARATION OF SPORE PROTEINS AND SUBSEQUENT CHARACTERISATION BY ELECTROPHORESIS AND MASS SPECTROMETRY \u003ci\u003eNicola Thorne, Saheer Gharbia and Haroun Shah\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 7.1 Introduction  \u003cp\u003e\u003c\/p\u003e 7.2 Experimental  \u003cp\u003e\u003c\/p\u003e \u003ci\u003e2.1 Sporulation media\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 7.3 Conclusion  \u003cp\u003e\u003c\/p\u003e 8) CHARACTERIZATION OF BACTERIAL MEMBRANE PROTEINS USING A NOVEL COMBINATION OF A LIPID BASED PROTEIN IMMOBILIZATION TECHNIQUE WITH MASS SPECTROMETRY  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eRoger Karlsson, Darren Chooneea, Elisabet Carlsohn, Vesela Encheva and Haroun Shah\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 8.1 Introduction  \u003cp\u003e\u003c\/p\u003e 8.2 The surface proteome  \u003cp\u003e\u003c\/p\u003e 8.3 Proteomics of pathogenic bacteria  \u003cp\u003e\u003c\/p\u003e 8.4 Lipid-based protein immobilization technology  \u003cp\u003e\u003c\/p\u003e 8.5 Salmonella Typhimurium – disease mechanism and outer membrane proteins  \u003cp\u003e\u003c\/p\u003e 8.6 Outer membrane proteins of S. Typhimurium  \u003cp\u003e\u003c\/p\u003e 8.7 Helicobacter pylori – disease mechanism and outer membrane proteins  \u003cp\u003e\u003c\/p\u003e 8.8 Surface proteins of intact Helicobacter pylori  \u003cp\u003e\u003c\/p\u003e 9) Wider Protein Detection from Biological Extracts by the Reduction of Dynamic Concentration Range.  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eLuc Guerrier, Egisto Boschetti and Piergiorgi Roghetti\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 9.1 Introduction  \u003cp\u003e\u003c\/p\u003e 9.2 Dealing with low-abundance protein discovery  \u003cp\u003e\u003c\/p\u003e 9.3 Conclusions and future prospects  \u003cp\u003e\u003c\/p\u003e 9.4 References  \u003cp\u003e\u003c\/p\u003e 10) 3D-gel electrophoresis - a new development in protein analysis.  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eRobert Ventzki and Josef Stegemann\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 10.1. Introduction  \u003cp\u003e\u003c\/p\u003e 10.2. Methods  \u003cp\u003e\u003c\/p\u003e 10.3 Results and discussion  \u003cp\u003e\u003c\/p\u003e 10.4 References  \u003cp\u003e\u003c\/p\u003e \u003cb\u003eSECTION 4: CHARACTERISATION OF MICROORGANISMS BY PATTERN MATCHING OF MASS SPECTRAL PROFILES AND BIOMARKER APPROACHES REQUIRING MINIMAL SAMPLE PREPARATION.\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e 11) Microbial Disease Biomarkers using ProteinChip Arrays  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eShea Hamilton, Michael Levin, J. Simon Kroll, Paul R. Langford\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 11.1 Introduction  \u003cp\u003e\u003c\/p\u003e 11.2 Biomarker studies involving patients infected with viruses  \u003cp\u003e\u003c\/p\u003e 11.3 Biomarker studies involving patients infected with parasites  \u003cp\u003e\u003c\/p\u003e 11.4 Biomarker studies involving patients infected with bacteria  \u003cp\u003e\u003c\/p\u003e 11.5 Other diseases of possible infectious origin  \u003cp\u003e\u003c\/p\u003e 11.6 Conclusions  \u003cp\u003e\u003c\/p\u003e 11.7 References  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e12) MALDI-TOF MS and microbial identification: years of experimental\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003edevelopment to an established protocol.\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003e\u003cu\u003eWibke Kallow, Marcel Erhard,\u003c\/u\u003e\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003e\u003cu\u003eHaroun N. Shah, Emmanuel Raptakis, Martin Welker.\u003c\/u\u003e\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 12.1 Identification of Microorganisms in Clinical Routine  \u003cp\u003e\u003c\/p\u003e 12.2 Mass Spectrometry and Microbiology  \u003cp\u003e\u003c\/p\u003e 12.3 Mass Spectral ‘Fingerprints’ of Whole Cells  \u003cp\u003e\u003c\/p\u003e 12.4 Reproducibility of Mass Spectral Fingerprints  \u003cp\u003e\u003c\/p\u003e 12.5 Species and Strain Discrimination by Mass Spectrometry  \u003cp\u003e\u003c\/p\u003e 12.6 Pattern Matching Approaches for automated Identification  \u003cp\u003e\u003c\/p\u003e 12.7 Mass Spectral Identification of Microorganism – Requirements for Routine Diagnostics  \u003cp\u003e\u003c\/p\u003e 12.8 Automated Mass Spectral Analysis of Microorganisms in Clinical Routine Diagnostics  \u003cp\u003e\u003c\/p\u003e 12.9 Acknowledgements and references  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e5: Targeted Molecules and Analysis of Specific Microorganisms.\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e 13) Whole Cell MALDI Mass Spectrometry for the Rapid Characterisation of  \u003cp\u003e\u003c\/p\u003e Bacteria\u003cbr\u003e A Survey of Applications to Major Phyletic Lines in Microbial  \u003cp\u003e\u003c\/p\u003e Kingdom.  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eBen van Baar\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 13.1 Introduction  \u003cp\u003e\u003c\/p\u003e 13.2\u003ca name=\"_Toc95220460\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447738\"\u003eScope\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e 13.3 \u003ca name=\"_Toc95220461\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447739\"\u003eReproducibility\u003c\/a\u003e\u003ca name=\"_Toc95220462\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447740\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e 13.3.1 \u003ci\u003eFactors concerning the sample\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 13.4 \u003ca name=\"_Toc95220463\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447741\"\u003eFactors concerning the MALDI MS process\u003c\/a\u003e\u003ca name=\"_Toc94447742\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e 13.5 Sample application and ionisation  \u003cp\u003e\u003c\/p\u003e 13.5 \u003ca name=\"_Toc94447743\"\u003eData analysis\u003c\/a\u003e\u003ca name=\"_Toc94447744\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e 13.6 Spectrum libraries  \u003cp\u003e\u003c\/p\u003e 13.6\u003ca name=\"_Toc95220464\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447745\"\u003eWhole cell MALDI MS of particular bacteria genera and species\u003c\/a\u003e\u003ca name=\"_Toc95220465\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447746\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eBacillus\u003c\/i\u003e spp\u003ci\u003e.\u003c\/i\u003e\u003ca name=\"_Toc95220466\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447747\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eStaphylococcus\u003c\/i\u003e spp.\u003ca name=\"_Toc95220467\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447748\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eStreptococcus\u003c\/i\u003e spp.\u003ca name=\"_Toc95220468\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447750\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eMycobacterium\u003c\/i\u003e spp.\u003ca name=\"_Toc95220469\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Other Gram-positive bacteria\u003ca name=\"_Toc95220470\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eEscherichia coli\u003c\/i\u003e\u003ca name=\"_Toc95220471\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447752\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Gram-negative food- and waterborne pathogen proteobacteria, other than E. Coli\u003ca name=\"_Toc95220472\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447754\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Typical sexually transmitted pathogens: Neisseria \u003ci\u003espp. and\u003c\/i\u003e Haemophilus \u003ci\u003espp.\u003c\/i\u003e\u003ca name=\"_Toc95220473\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447755\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Gram-negative biothreat agent bacteria\u003ca name=\"_Toc95220474\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447756\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Other Gram-negative bacteria\u003ca name=\"_Toc95220475\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447757\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003ePathogenic Cyanobacteria\u003c\/i\u003e\u003ca name=\"_Toc95220476\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447758\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Strategies for the identification of biomarkers in whole cell MALDI MS spectra\u003ca name=\"_Toc95220477\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447759\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Protein database consideration\u003ca name=\"_Toc95220478\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447760\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e On-target treatment and analysis  \u003cp\u003e\u003c\/p\u003e Off-target’ Analysis and correlation with proteomics studies\u003ca name=\"_Toc95220480\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447762\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e General consideration of biomarker identification strategies\u003ca name=\"_Toc95220481\"\u003e\u003c\/a\u003e\u003ca name=\"_Toc94447763\"\u003e\u003c\/a\u003e  \u003cp\u003e\u003c\/p\u003e Conclusions and outlook  \u003cp\u003e\u003c\/p\u003e 14) The power of Gel-based proteomics to understand  \u003cp\u003e\u003c\/p\u003e physiology in \u003ci\u003eBacillus subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eHaike Antelmann and Michael Hecker\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e Introduction  \u003cp\u003e\u003c\/p\u003e Results  \u003cp\u003e\u003c\/p\u003e 1 Proteomics of protein secretion mechanisms in \u003ci\u003eBacillus subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.1. Protein export machineries of \u003ci\u003eB. subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.1 The extracellular proteome of \u003ci\u003eB. subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.2 The cell wall proteome of \u003ci\u003eB. subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.3. The membrane attached lipoproteome of \u003ci\u003eB. subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 1.3 The proteome analysis of protein secretion mechanisms in \u003ci\u003eB. subtilis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e2 Definition of proteomic signatures to study cell physiology\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e2.1. Proteomic signatures of \u003ci\u003eB. subtilis\u003c\/i\u003e in response to stress and starvation\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e2.2. Proteomic signatures of \u003ci\u003eB. subtilis\u003c\/i\u003e in response to thiol-reactive electrophiles uncovered novel regulatory mechanisms\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e 2.3. The MarR\/DUF24-family YodB repressor is directly sensing thiol- reactive electrophiles \u003ci\u003evia\u003c\/i\u003e the conserved Cys6 residue  \u003cp\u003e\u003c\/p\u003e 3 Proteomics as tool to visualize reversible and irreversible thiol- modifications  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e3.1. The thiol-redox proteome of \u003ci\u003eB. subtilis\u003c\/i\u003e in response to diamide and quinones\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e3.2. Depletion of thiol-containing proteins by quinones due to thiol-(S)- alkylation\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e4 Proteomics as tool to define regulon structures and targets for non- coding RNAs\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e \u003cu\u003e5 Acknowledgment\u003c\/u\u003e  \u003cp\u003e\u003c\/p\u003e 15) Mass Spectrometry in the study of Tularemia Pathogenesis.  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eJiri Stulik, Juraj Lenco, Jiri Dresler, Jana Klimentova, Lenka Hernychova, Lucie Balonova and Alena Fucikova.\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003e15.1\u003c\/i\u003e Introduction to molecular p\u003cst1:personname w:st=\"on\"\u003eat\u003c\/st1:personname\u003ehogenesis of \u003ci\u003eFrancisella tularensis\u003c\/i\u003e infection  \u003cp\u003e\u003c\/p\u003e \u003ci\u003e15.2 Francisella tularensis\u003c\/i\u003e LVS proteome alter\u003cst1:personname w:st=\"on\"\u003eat\u003c\/st1:personname\u003eions induced by different temper\u003cst1:personname w:st=\"on\"\u003eat\u003c\/st1:personname\u003eures and st\u003cst1:personname w:st=\"on\"\u003eat\u003c\/st1:personname\u003eionary phase of growth  \u003cp\u003e\u003c\/p\u003e 15.3Analysis of membrane protein complexes of \u003ci\u003eFrancisella tularensis\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 15.4 Analysis of \u003ci\u003eFrancisella tularensis\u003c\/i\u003e glycoproteins and phosphoproteins  \u003cp\u003e\u003c\/p\u003e 15.5Identific\u003cst1:personname w:st=\"on\"\u003eat\u003c\/st1:personname\u003eion of \u003ci\u003eFrancisella tularensis\u003c\/i\u003e transcription factors potentially involved in its virulence  \u003cp\u003e\u003c\/p\u003e 15.6 Acknowledgements  \u003cp\u003e\u003c\/p\u003e References  \u003cp\u003e\u003c\/p\u003e 16) Bacterial Post-Genomics for Vaccine development  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eGiulia Bernardini, Daniela Braconi and Annalisa Santucci\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e Summary  \u003cp\u003e\u003c\/p\u003e comparative genomics  \u003cp\u003e\u003c\/p\u003e transcriptomics  \u003cp\u003e\u003c\/p\u003e proteomics and immmunoproteomics  \u003cp\u003e\u003c\/p\u003e other high-throughput technologies  \u003cp\u003e\u003c\/p\u003e meningococcal vaccines and reverse vaccinology  \u003cp\u003e\u003c\/p\u003e \u003ci\u003ehelicobacter pylori\u003c\/i\u003e vaccines  \u003cp\u003e\u003c\/p\u003e conclusions  \u003cp\u003e\u003c\/p\u003e references  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e6 Statistical Analysis of 2D Gels and Analysis of Mass Spectral Data\u003c\/b\u003e  \u003col\u003e \u003cli\u003eMachine Learning Techniques for the Analysis of Mass spectrometry Data. \u003c\/li\u003e\n\u003c\/ol\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eGraham Ball and Ali Al-Shahib\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 17.1 Introduction  \u003cp\u003e\u003c\/p\u003e 17.2 Pre-processing MS data  \u003cp\u003e\u003c\/p\u003e 17.3 Classification of MS data  \u003cp\u003e\u003c\/p\u003e 17.4 Evaluation of Classification Models  \u003cp\u003e\u003c\/p\u003e 18) Mass Spectrometry for microbial Proteomics: Issues in data analysis with  \u003cp\u003e\u003c\/p\u003e electrophoretic or mass spectrometric expression proteomic data.  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eNatasha A. Karp\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e Title page  \u003cp\u003e\u003c\/p\u003e Foreword  \u003cp\u003e\u003c\/p\u003e 18.1 Introduction  \u003cp\u003e\u003c\/p\u003e 18.2 Experimental design  \u003cp\u003e\u003c\/p\u003e 18.3 Data analysis  \u003cp\u003e\u003c\/p\u003e 18.4 Validation  \u003cp\u003e\u003c\/p\u003e 18.5 Conclusions  \u003cp\u003e\u003c\/p\u003e 18.6 Figure legends  \u003cp\u003e\u003c\/p\u003e 18.7 References  \u003cp\u003e\u003c\/p\u003e \u003cb\u003eSection 7: DNA Resequencing by MALDI-TOF-Mass Spectrometry and its\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e \u003cb\u003eApplication to Traditional Microbiological Problems.\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e (19) Comparative DNA sequence analysis and typing using Mass  \u003cp\u003e\u003c\/p\u003e Spectrometry  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eChristiane Honisch,Yong Chen and Franz Hillenkamp\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e 19.1 Introduction  \u003cp\u003e\u003c\/p\u003e 19.2 Comparative Sequence Analysis by MALDI-TOF MS  \u003cp\u003e\u003c\/p\u003e 19.3 Applications of nucleic acid analysis by MALDI-TOF MS in clinical microbiology  \u003cp\u003e\u003c\/p\u003e 19.4 Conclusion  \u003cp\u003e\u003c\/p\u003e References  \u003cp\u003e\u003c\/p\u003e (20) Transfer of a Traditional Serotyping System (Kauffmann-White)  \u003cp\u003e\u003c\/p\u003e onto a MALDI-TOF-MS platform for the rapid Typing of \u003ci\u003eSalmonella\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e isolates\u003ci\u003e.\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eChloe Bishop, Cath Arnold and Saheer Gharbia\u003c\/i\u003e  \u003cp\u003e\u003c\/p\u003e Typing of salmonella isolates  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.1 Introduction\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.2 Salmonella, the pathogen\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Biology  \u003cp\u003e\u003c\/p\u003e Pathogenesis  \u003cp\u003e\u003c\/p\u003e Clinical Disease  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.3 Complex genetic structure and the need to subtype this genus\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Phylogeny  \u003cp\u003e\u003c\/p\u003e Virulence and Gene Transfer  \u003cp\u003e\u003c\/p\u003e Necessity to subtype  \u003cp\u003e\u003c\/p\u003e \u0026gt;\u003cb\u003e1.4 Antigenic Analysis - The Traditional Kauffmann - White Schema and its future\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Serotyping  \u003cp\u003e\u003c\/p\u003e Flagellar Antigens  \u003cp\u003e\u003c\/p\u003e Flagellar Variation  \u003cp\u003e\u003c\/p\u003e Somatic Antigens  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.5 Sequence-based methods to determine serotypes\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Flagellin sequences correspond directly to Salmonella serotype.  \u003cp\u003e\u003c\/p\u003e Specific SNPs  \u003cp\u003e\u003c\/p\u003e Subtyping by antigen sequence  \u003cp\u003e\u003c\/p\u003e Variation of the \u003ci\u003eRfb\u003c\/i\u003e Genes  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.6 Transferring the Sequences to a MALDI platform for Rapid Analysis\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Intro  \u003cp\u003e\u003c\/p\u003e Different methods available  \u003cp\u003e\u003c\/p\u003e MALDI-TOF data analysis  \u003cp\u003e\u003c\/p\u003e \u003ci\u003eSalmonella\u003c\/i\u003e molecular serotyping as a Case Study  \u003cp\u003e\u003c\/p\u003e Gene Selection  \u003cp\u003e\u003c\/p\u003e Results Overview  \u003cp\u003e\u003c\/p\u003e Clustering and Sequence Variation of Amplicons  \u003cp\u003e\u003c\/p\u003e \u003cb\u003e1.7 Conclusions and Summary\u003c\/b\u003e  \u003cp\u003e\u003c\/p\u003e Closing Remarks\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\u003cp\u003e\u003cfont size=\"3\"\u003eSubject Areas: Chemistry [\u003ca title=\"See our other books on Chemistry\" href=\"https:\/\/freshlyprintedbooks.co.uk\/search?q=%22Chemistry%20%5BPN%5D%22\"\u003ePN\u003c\/a\u003e]\u003c\/font\u003e\u003c\/p\u003e\r\n\r\n\r\n\u003c\/font\u003e","brand":"Wiley","offers":[{"title":"Brand New","offer_id":52278020571416,"sku":"9780470681992","price":75.59,"currency_code":"GBP","in_stock":true}],"thumbnail_url":"\/\/cdn.shopify.com\/s\/files\/1\/0730\/2037\/5320\/files\/9780470681992.jpg?v=1781455799","url":"https:\/\/freshlyprintedbooks.co.uk\/products\/mass-spectrometry-for-microbial-proteomics-hardback-9780470681992","provider":"Freshly Printed Books","version":"1.0","type":"link"}