Pseudomonas : methods and protocols

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Pseudomonas : methods and protocols

edited by Alain Filloux, Juan-Luis Ramos

（Methods in molecular biology, 1149）

Humana Press, [2014]

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内容説明・目次

内容説明

In Pseudomonas aeruginosa, expert researchers in the field detail many of the methods which are now commonly used to study this fascinating microorganism. Chapters include microbiological methods to high-throughput molecular techniques that have been developed over the last decade. 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 key tips on troubleshooting and avoiding known pitfalls. Authoritative and practical, Pseudomonas aeruginosa aids in the continuing study of new and cutting edge findings.

目次

Part I: BASIC PSEUDOMONAS FEATURES 1. Gene Transfer: Transduction Emanuela Frangipani 2. Gene Transfer: Transformation/Electroporation Frederic Cadoret, Chantal Soscia and Rome Voulhoux 3. Gene transfer: Conjugation Thibault G. Sana, Aurelie Laubier and Sophie Bleves 4. Pseudomonas Bacteriophage Isolation and Production Joana Azeredo, Sanna Sillankorva, and Diana Priscilla Pires 5. Genotyping Methods Burkhard Tuemmler 6. Drug Susceptibility Testing by Dilution Methods Katy Jeannot & Patrick Plesiat 7. Plate-based Assay for Swimming Motility in Pseudomonas aeruginosa Dae-Gon Ha, Sherry L. Kuchma & George A. O'Toole 8. Plate-based Assay for Swarming Motility in Pseudomonas aeruginosaDae-Gon Ha, Sherry L. Kuchma and George A. O'Toole 9. Motility Assay: Twitching Motility Lynne Turnbull and Cynthia B. Whitchurch 10. Qualitative and Quantitative Assays for Flagellum-mediated Chemotaxis Jose-Antonio Reyes-Darias, Cristina Garcia-Fontana, Andres Corral Lugo, Miriam Rico-Jimenez & Tino Krell 11. Microscopic Analysis: Morphotypes and Cellular Appendages Olga Zaborina, John Alverdy, Megha Shah, and Yimei Chen Part II: PROTEINS AND PROTEIN TRANSPORT 12. Determination of Lipolytic Activities Karl-Erich Jaeger and Filip Kovacic 13. Elastinolytic and Proteolytic EnzymesContributors: Efrat Kessler and Mary Safrin 14. In vitro Assays to Monitor the Activity of Pseudomonas aeruginosa Type III Secreted Proteins Stephanie L. Rolsma & Dara W. Frank 15. Cell Fractionation Berengere Ize, Veronique Viarr, and Rome Voulhoux 16. Characterization of Molecular Interactions using Isothermal Titration Calorimetry Tino Krell, Jesus Lacal, Cristina Garcia-Fontana, Hortencia Silva-Jimenez, Miriam Rico-Jimenez, Andres Corral Lugo, Jose A. Reyes Darias, and Juan Luis Ramos 17. Proteomic Analysis Pascal Cosette and Thierry Jouenne 18. Membrane Proteomics of Pseudomonas aeruginosa Zofia Magnowska, Isabel Hartmann, Lothar Jansch and Dieter Jahn 19. Construction of Pseudomonas Two-hybrid Libraries for High-throughput Assays Sophie de Bentzmann and Christophe Bordi Part III: SMALL MOLECULES AND POLYSACCHARIDES 20. Biosensors for Qualitative and Semi-quantitative Analysis of Quorum Sensing Signal Molecules Matthew Fletcher, Miguel Camara, David A. Barrett, and Paul Williams 21. LC-MS/MS Quantitative Analysis of Quorum Sensing Signal Molecules Catherine A. Ortori, Nigel Halliday, Miguel Camara, Paul Williams, and David A. Barrett 22. LC/MS/MS-Based Quantitative Assay for the Secondary Messenger Molecule, c-di-GMP Yasuhiko Irie and Matthew R. Parsek 23. Metabolic Footprinting: Extracellular Metabolomic Analysis Volker Behrends, Huw D. Williams, and Jaco G. Bundy 24. Pyoverdine and Pyochelin Measurements Francoise Hoegy, Gaetan L. A. Mislin & Isabelle J. Schalk 25. Measurement of Phenazines in Bacterial Cultures Suzanne E. Kern, and Dianne K. Newman 26. Extraction and Measurement of NAD(P)+ and NAD(P)H Suzanne E. Kern, Alexa Price-Whelan, and Dianne K. Newman 27. Cyanide Measurements in Bacterial Culture and Sputum Chandrika Goh Nair, Ben Ryall, and Huw D. Williams 28. Monitoring Iron Uptake by Siderophores Francoise Hoegy, and Isabelle J. Schalk 29. Exopolysaccharide Quantification Irina Sadovskaya 30. Liquid Chromatography/Mass Spectrometry for the Identification and Quantification of Rhamnolipids Ahmad Mohammad Abdel-Mawgoud, Francois Lepine & Eric Deziel 31. LPS quantitation Procedures Joseph S. Lam, Erin M. Anderson, and Youai Hao 32. Monitoring Lectin Interaction with Carbohydrates Sophie de Bentzmann, Annabelle Varrot, and Anne Imberty Part IV: PSEUDOMONAS GENES and GENE EXPRESSION 33. Mining the Pseudomonas Genome Geoffrey L. Winsor and Fiona S. L. Brinkman 34. Identification of Bacterial Small RNAs by RNA Sequencing Maria Gomez-Lozano, Rasmus Lykke Marvig, Soeren Molin, and Katherine S. Long 35. Gene Amplification and qRT-PCR Cerith Jones and Alain Filloux 36. The Standard European Vector architecture (SEVA) plasmid toolkit Gonzalo Durante-Rodriguez, Victor de Lorenzo and Esteban Martinez-Garcia 37. Chromosomal integration of transcriptional fusions Rafael Silva-Rocha and Victor de Lorenzo 38. A Method to Capture Large DNA Fragments from Genomic DNA Genevieve Ball, Alain Filloux, and Rome Voulhoux 39. Transposon Mutagenesis Hemantha D. Kulasekara and Bridget R. Kulasekara 40. Site-directed Mutagenesis and Gene Deletion using Reverse Genetics Contributors: Daniela Muhl and Alain Filloux 41. Signature Tagged Mutagenesis Irena-Kukavika-Ibrulj & Roger Levesque 42. Construction of a Pseudomonas aeruginosa Genomic Bank Christophe Bordi 43. Strategy for Genome Sequencing Analysis and Assembly for Comparative Genomics of Pseudomonas Genomes Julie Jeukens, Brian Boyle, Nicholas P. Tucker, and Roger Levesque 44. Promoter Fusions with Optical Outputs in Individual Cells and in Populations Ilaria Benedetti and Victor de Lorenzo 45. Chromatin Immunoprecipitation for ChIP-chip and ChIP-Seq Contributors: Sebastian Schulz and Susanne Haussler 46. Transcriptional Analysis of Pseudomonas aeruginosa Infected C.aenorhabditis elegans Ashleigh MacKenzie, Lewis Stewart, Paul A. Hoskisson and Nicholas P. Tucker Part V: LIFESTYLES AND INFECTION MODELS 47. Methods for Studying Biofilm Formation: Flow Cells and Confocal Laser Scanning Microscopy Tim Tolker-Nielsen and Claus Sternberg 48. Biofilm Formation in the 96-well Microtiter Plate Barbara M. Coffey and Gregory G. Anderson 49. Methods for Studying Biofilm Dispersal in Pseudomonas aeruginosa Contributors: Nicolas Barraud, Joana A. Moscoso, Jean Marc Ghigo, and Alain Filloux 50. Pseudomonas aeruginosa PA14 Pathogenesis in Caenorhabditis Elegans Natasha V. Kirienko, Brent O. Cezairliyan, Frederick M. Ausubel and Jennifer R. Powell 51. Assessing Pseudomonas Virulence using a Non-mammalian Host Model: Dictyostelium Discoideum Genevieve Filion and Steve Charette 52. Assessing Pseudomonas virulence with non-mammalian host: Galleria mellonella Gudrun Koch, Pol Nadal Jimenez, Robbert H. Cool &Wim J. Quax 53. Assessing Pseudomonas Virulence with the Non-mammalian Host: Arabidopsis Thaliana Regina L. Baldini, Melissa Starkey, and Laurence G. Rahme 54. Assessing Pseudomonas aeruginosa Persister/Antibiotic Tolerant Cells Ronen Hazan, Damien Maura, Yok-Ai Que & Laurence G. Rahme 55. Assessing Pseudomonas Virulence with Non-mammalian Host: Zebrafish Maria A. Llamas and Astrid M. van der Sar 56. Assessing Pseudomonas Virulence with a Non-mammalian Host: Drosophila Melanogaster Samantha Haller, Stefanie Limmer, and Dominique Ferrandon 57. Assessing Pseudomonas Virulence using Host Cells Iwona Bucior, Cindy Tran, and Joanne Engel 58. Assessing Pseudomonas aeruginosa Virulence and the Host Response using Murine Models of Acute and Chronic Lung Infection Irena Kukavica-Ibrulj, Marcella Facchini, Cristina Cigina, Roger Levesque & Alessandra Bragonzi 59. Assessing Pseudomonas Virulence using Mammalian Models: Acute Infection Model Antje Munder and Burkhard Tuemmler 60. Burn Mouse Models Henrik Calum, Niels Hoiby and Claus Moser

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