Part I: Molecular Biology and Bioinformatics Methods
1. Generation of Markerless Gene Deletion Mutants in Listeria monocytogenes Using a Mutated PheS for Counterselection
Shai Ran Sapir, Etai Boichis, and Anat A. Herskovits
2. A Rapid Fluorescence-Based Screen to Identify Regulators and Components of Interbacterial Competition Mechanisms in Bacteria
Daniel Tchelet and Dor Salomon
3. Predicting Type III Effector Proteins Using the Effectidor Web-Server
Naama Wagner, Doron Teper, and Tal Pupko
4. Assay for Type III Secretion in Escherichia coli
Bosko Mitrovic and Neta Sal-Man
5. Profiling of Secreted Type 3 Secretion System Substrates by Salmonella enterica
Rivka Shem-Tov and Ohad Gal-Mor
Part II: Cell Culture and Organoid Models of Infection
6. Analysis of SPI-1 Dependent Type III Secretion and Injection Using a NanoLuc Luciferase-Based Assay
Sara Vilela Pais, Sibel Westerhausen, Erwin Bohn, and Samuel Wagner
7. Mycobacterium tuberculosis Infection of THP-1 Cells: A Model for High Content Analysis of Intracellular Growth and Drug Susceptibility
Leah Rankine-Wilson, Céline Rens, Henok Asfaw Sahile, and Yossef Av-Gay
8. Bone Marrow-Derived Macrophage (BMDM) Infection by Listeria monocytogenes
Etai Boichis, Shai Ran Sapir, and Anat A. Herskovits
9. Preparation and Inflammasome Activation of Murine Bone Marrow-Derived and Resident Peritoneal Macrophages
Izumi Sasaki and Tsuneyasu Kaisho
10. Flow Cytometry-Based Single Cell Analyses of Bacterial Adaption to Intracellular Environments
Marc Schulte and Michael Hensel
11. Quantification of Microbial Fluorescent Sensors during Live Intracellular Infections
Erez Mills and Erik Petersen
12. Dissecting Human Blood Immune Cells Response to Intracellular Infection Using Single Cell RNA-Sequencing
Shelly Hen-Avivi and Roi Avraham
13. Salmonella enterica Infection of Human and Mouse Colon Organoid-Derived Monolayers
Erin C. Boyle, Eva J. Wunschel, and Guntram A. Grassl
Part III: In Vivo Models of Infection
14. Analysis of Salmonella enterica Adhesion to Leaves of Corn Salad or Lettuce
Laura Elpers and Michael Hensel
15. Methods for Using the Galleria mellonella Invertebrate Model to Probe Enterococcus faecalis Pathogenicity
Ling Ning Lam, Debra N. Brunson, Jessica K. Kajfasz, and José A. Lemos
16. Murine Soft Tissue Infection Model to Study Group A Streptococcus (GAS) Pathogenesis in Necrotizing Fasciitis
Miriam Ravins, Poornima Ambalavanan, Debabrata Biswas, Rachel Tan Ying Min, Kimberly Lim Xuan Zhen, Yael Kaufman, Aparna Anand, Abhinay Sharma, and Emanuel Hanski
17. Mouse Model to Study Salmonella-Induced Colitis
Katrin Ehrhardt and Guntram A. Grassl
18. Analysis of Salmonella Typhi Pathogenesis in a Humanized Mouse Model
Taylor A. Stepien, Stephen J. Libby, Joyce E. Karlinsey, Michael A. Brehm, Dale L. Greiner, Leonard D. Shultz, Thea Brabb, and Ferric C. Fang
19. In Vivo Tracking of Bacterial Colonization in Different Murine Models Using Bioluminescence: The Example of Salmonella
Michaël Koczerka, Isabelle Lantier, Anne Pinard, Marie Morillon, Justine Deperne, Ohad Gal-Mor, Olivier Grépinet, and Isabelle Virlogeux-Payant
20. Two In Vivo Models to Study Salmonella Asymptomatic Carrier State in Chicks
Philippe Velge, Pierrette Menanteau, Thierry Chaumeil, Emilie Barilleau, Jérôme Trotereau, and Isabelle Virlogeux-Payant
