Diagnostic Bacteriology: Methods and Protocols (Methods in Molecular Biology)

Description: This volume provides a comprehensive collection of protocols on molecular diagnostics of bacteria that will suit the needs of molecular biologists, clinical laboratorians, and physician scientists alike. Chapters detail common bacterial pathogens, protocols that can be applied to diverse or even unknown pathogens, digital PCR, next generation sequencing, and bioinformatic analyses. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Diagnostic Bacteriology: Methods and Protocols delivers a wide range of assay types all on the cutting edge of diagnostic bacteriology. 1. Whole Genome Enrichment using RNA Probes and Sequencing of Chlamydia Trachomatis Directly from Clinical Samples Amanda Claire Brown and Mette T. Christiansen 2. Characterization of Sinus Microbiota by 16S Sequencing from Swabs Thad W. Vickery, Jennifer M. Kofonow, and Vijay R. Ramakrishnan 3. Molecular Subtyping of Salmonella Typhimurium with Multiplex Oligonucleotide Ligation-PCR (MOL-PCR) Véronique Wuyts, Wesley Mattheus, Nancy H.C. Roosens, Kathleen Marchal, Sophie Bertrand, and Sigrid C.J. De Keersmaecker 4. Detection of Helicobacter pylori DNA in Formalin-fixed Paraffin Embedded Gastric Biopsies using Laser Micro-dissection and qPCR Maria Fernanda Loayza Villa, Valeria Liliana Herrera Sevilla, and Nicolás Vivar Díaz 5. Mycobacterial Load Assay Stephen H. Gillespie, Wilber Sabiiti, and Katarina Oravcova 6. Defining Diagnostic Biomarkers using Shotgun Proteomics and MALDI-TOF Mass Spectrometry Jean Armengaud 7. Detection and Typing of 'Candidatus Phytoplasma' spp. in Host DNA Extracts Using Oligonucleotide-Coupled Fluorescent Microspheres Edel Pérez-López, Christine Hammond, Chrystel Olivier, and Tim J. Dumonceaux 8. Detection of Helicobacter Pylori in the Gastric Mucosa by Fluorescence in vivo Hybridization Silvia Fontenete, Marina Leite, Ceu Figueiredo, Paul Cos, and Nuno F. Azevedo 9. Rapid Antibiotic Susceptibility Testing for Urinary Tract Infections Anja Mezger, Mats Nilsson, and Dan I. Andersson 10. Detection and Differentiation of Lyme Spirochetes and other Tick-borne Pathogens from Blood using real-time PCR with Molecular Beacons Samantha Schlachter, Kamfai Chan, Salvatore A. E. Marras, and Nikhat Parveen 11. Methods for Real-time PCR-based Diagnosis of Chlamydia Pneumoniae, Chlamydia Psittaci and Chlamydia Abortus Infections in an Opened Molecular Diagnostic Platform Onya Opota, René Brouillet, Gilbert Greub, and Katia Jaton 12. Real-time PCR to Identify Staphylococci and Assay for Virulence from Blood Charles E. Okolie 13. Multiplex Peptide Nucleic Acid Fluorescence in situ Hybridization (PNA-FISH) for Diagnosis of Bacterial Vaginosis Antonio Machado and Nuno Cerca 14. A Closed-tube Loop-Mediated Isothermal Amplification Assay for the Visual Endpoint Detection of Brucella spp. and Mycobacterium Avium Subsp. Paratuberculosis Marcos D. Trangoni, Andrea K. Gioffré, and Silvio L. Cravero 15. Highly Specific Ligation-Dependent Microarray Detection of Single Nucleotide Polymorphisms Noa Wolff and Ivan BariSic 16. Multilocus Sequence Typing (MLST) for Cronobacter spp.

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