Mycobacteria protocols
Author(s)
Bibliographic Information
Mycobacteria protocols
（Methods in molecular biology / John M. Walker, series editor, 2314）（Springer protocols）
Humana Press, c2021
4th ed
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Note
Previous ed.: 2015
Includes bibliographical references and index
Description and Table of Contents
Description
This fully updated edition explores the latest techniques to study the challenging, and at times dangerous, genus of bacteria known as mycobacteria with basic methods that are still required for mycobacteriology along with the newer or improved methods that have been developed. The volume features chapters on the basics of DNA isolation, protein isolation, and lipid isolation, as well as more sophisticated techniques for isolation of ribosomes, and continues with sections involving analyzing subcellular fractions, culture methods, sequencing technology, in vitro models, molecular methods, as well as drug discovery applications. Written for the highly successful Methods in Molecular Biology series, 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 up-to-date, Mycobacteria Protocols, Fourth Edition serves as an ideal guide for those starting out with their mycobacteria research and also for those who have worked with it for decades.
Table of Contents
- 1. Culturing Mycobacteria Elizabeth Wallace, Debra Hendrickson, Nicholas Tolli, Carolina Mehaffy, Maria Pena, Jerry A. Nick, Phillip Knabenbaur, Jackson Watkins, Anne Simpson, Anita G. Amin, Delphi Chatterjee, Karen M. Dobos, Ramanuj Lahiri, Linda Adams, Michael Strong
- Max Salfinger, Rebecca Bradford, Timothy T. Stedman, Marco A. Riojas, and Manzour Hernando Hazbon 2. DNA Isolation from Mycobacteria Heena Jagatia and Daire Cantillon 3. Extraction and Separation of Mycobacterial Proteins Megan Lucas, Joan M. Ryan, Jackson Watkins, Kala Early, Nicole A. Kruh-Garcia, Carolina Mehaffy, and Karen M. Dobos 4. Lipid and Lipoarabinomannan Isolation and Characterization Marie-Antoinette Laneelle, Lucie Spina, Jerome Nigou, Anne Lemassu, and Mamadou Daffe 5. Purification of Hibernating and Active C- Ribosomes from Zinc-Starved Mycobacteria Yunlong Li, Pooja Keshavan, Jamie H. Corro, Ravi K. Koripella, Rajendra K. Agrawal, and Anil K. Ojha 6. Macrophage Infection Models for Mycobacterium tuberculosis Benjamin K. Johnson, Sean M. Thomas, Andrew J. Olive, and Robert B. Abramovitch 7. Novel Single-Cell and High Throughput Microscopy Techniques to Monitor Dictyostelium discoideum-Mycobacterium marinum Infection Dynamics Manon Mottet, Cristina Bosmani, Nabil Hanna, Jahn Nitschke, Louise Lefrancois, and Thierry Soldati 8. Single-Cell Analysis of Mycobacteria Using Microfluidics and Time-Lapse Microscopy Giulia Manina and Neeraj Dhar 9. Measuring Efflux and Permeability in Mycobacteria Liliana Rodrigues, Jose A. Ainsa, and Miguel Viveiros 10. Drug Susceptibility Screening Using In Vitro Models of Hypoxic Non-Replicating Persistent Mycobacteria Savannah E.R. Gibson, James Harrison, and Jonathan A.G. Cox 11. Flow Cytometry Analysis of Mycobacteria and Mycobacteria-Infected Immune Cells Sydney L. Solomon and Bryan D. Bryson 12. Electroporation of Mycobacteria Tanya Parish 13. Gene Switching and Essentiality Testing Amanda Claire Brown 14. Oligo-Mediated Recombineering and Its Use for Making SNPs, Knockouts, Insertions, and Fusions in Mycobacterium tuberculosis Kenan C. Murphy 15. Using Proteolytic Hypomorphs to Detect Small Molecule Mechanism of Action Eachan O. Johnson and Deborah T. Hung 16. CRISPR Interference (CRISPRi) for Targeted Gene Silencing in Mycobacteria Andrew I. Wong and Jeremy M. Rock 17. Exploiting Fluorescent Proteins to Understand Mycobacterium tuberculosis Biology David Giacalone, Lu Huang, and Shumin Tan 18. Metabolic Labeling of Live Mycobacteria with Trehalose-Based Probes Nicholas Banahene and Benjamin M. Swarts 19. Identification and Characterization of Mycobacterial Species Using Whole Genome Sequences Marco A. Riojas, Andrew M. Frank, Samuel R. Greenfield, Stephen P. King, Conor J. Meehan, Michael Strong, Alice R. Wattam, and Manzour Hernando Hazbon 20. Whole Genome Sequencing of Mycobacterium tuberculosis Directly from Sputum Samples Amanda Claire Brown 21. Experimental and Computational Workflow for RNA Sequencing in Mycobacterium tuberculosis: From Total RNA to Differentially Expressed Genes Shuyi Ma, Richard M. Jones Jr., Natalie S. Gleason, Jessica Farrow-Johnson, and David R. Sherman 22. RNA Sequencing for Transcript 5'-End Mapping in Mycobacteria M. Carla Martini, Huaming Sun, and Scarlet S. Shell 23. Methods for Proteomic Analyses of Mycobacteria Carolina Mehaffy, Megan Lucas, Nicole A. Kruh-Garcia, and Karen M. Dobos 24. Targeted Lipidomics of Mycobacterial Lipids and Glycolipids Emilie Layre 25. Metabolomics of Mycobacterium tuberculosis Kyle A. Planck, Madhumitha Nandakumar, Luiz Pedro S. de Carvalho, and Kyu Rhee 26. Determining Minimum Inhibitory Concentrations in Liquid Cultures or on Solid Medium Qinglan Wang and Helena I.M. Boshoff 27. A Multi-Stress Model for High Throughput Screening Against Non-Replicating Mycobacterium tuberculosis Ben Gold, Thulasi Warrier, and Carl Nathan 28. Antimicrobial Susceptibility Testing for Mycobacterium sps in High Throughput Format Esther Perez-Herran and Alfonso Mendoza 29. High-Content Analysis Monitoring Intracellular Trafficking and Replication of Mycobacterium tuberculosis Inside Host Cells Nathalie Deboosere, Imene Belhaouane, Arnaud Machelart, Eik Hoffmann, Alexandre Vandeputte, and Priscille Brodin 30. Efficient Measurement of Drug Interactions with DiaMOND (Diagonal Measurement of N-Way Drug Interactions) Nhi Van, Yonatan Degefu, and Bree B. Aldridge 31. Drug Sensitivity Testing of Mycobacterium tuberculosis Growing in a Hollow Fiber Bioreactor Brett Mason and Veronique Dartois
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