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Inhalt

Contributors ix

Preface xvii

I. Genomes, Genomics, and Genetic Exchange

1. Gene Transfer in Mycobacterium tuberculosis: Shuttle Phasmids to Enlightenment 3
   William R. Jacobs, Jr.

2. Mycobacterial Pathogenomics and Evolution 27
   Daria Bottai, Timothy P. Stinear, Philip Supply, and Roland Brosch

3. BCG Vaccines 49
   Vanessa Tran, Jun Liu, and Marcel A. Behr

4. Distributive Conjugal Transfer: New Insights into Horizontal Gene Transfer and Genetic Exchange in Mycobacteria 61
   Keith M. Derbyshire and Todd A. Gray

5. Molecular Genetics of Mycobacteriophages 81
   Graham F. Hatfull

6. Genetics of Phage Lysis 121
   Madalena Pimentel

   Ii. Gene Expression and Regulation

7. Sigma Factors: Key Molecules in Mycobacterium tuberculosis Physiology and Virulence 137
   Riccardo Manganelli

8. Transcription Factor Binding Site Mapping Using ChIP-Seq 161
   Suma Jaini, Anna Lyubetskaya, Antonio Gomes, Matthew Peterson, Sang Tae Park, Sahadevan Raman, Gary Schoolnik, and James Galagan

9. Noncoding RNA in Mycobacteria 183
   Kristine B. Arnvig, Teresa Cortes, and Douglas B. Young

10. Two-Component Regulatory Systems of Mycobacteria 209
    Tanya Parish

11. Regulated Expression Systems for Mycobacteria and Their Applications 225
    Dirk Schnappinger and Sabine Ehrt

    Iii. The Mycobacterial Proteome

12. Mycobacterium tuberculosis in the Proteomics Era 241
    Martin Gengenbacher, Jeppe Mouritsen, Olga T. Schubert, Ruedi Aebersold, and Stefan H. E. Kaufmann

13. Structural Annotation of the Mycobacterium tuberculosis Proteome 261
    Nagasuma Chandra, Sankaran Sandhya, and Praveen Anand

14. Cyclic AMP Signaling in Mycobacteria 281
    Gwendowlyn S. Knapp and Kathleen A. McDonough

    IV. Metabolism

15. The Physiology and Genetics of Oxidative Stress in Mycobacteria 299
    Bridgette M. Cumming, Dirk Lamprecht, Ryan M. Wells, Vikram Saini, James H. Mazorodze, and Adrie J. C. Steyn

16. Metabolomics of Central Carbon Metabolism in Mycobacterium tuberculosis 323
    Anthony D. Baughn and Kyu Y. Rhee

17. Mycobacterial Lipidomics 341
    Emilie Layre, Reem Al-Mubarak, John T. Belisle, and D. Branch Moody

18. Genetics of Mycobacterial Trehalose Metabolism 361
    Rainer Kalscheuer and Hendrik Koliwer-Brandl

19. Metallobiology of Tuberculosis 377
    G. Marcela Rodriguez and Olivier Neyrolles

20. Energetics of Respiration and Oxidative Phosphorylation in Mycobacteria 389
    Gregory M. Cook, Kiel Hards, Catherine Vilcheze, Travis Hartman, and Michael Berney

    V. Genetics of Drug Resistance

21. Molecular Basis of Drug Resistance in Mycobacterium tuberculosis 413
    Keira A. Cohen, William R. Bishai, and Alexander S. Pym

22. Resistance to Isoniazid and Ethionamide in Mycobacterium tuberculosis: Genes, Mutations, and Causalities 431
    Catherine Vilcheze and William R. Jacobs, Jr.

23. The Molecular Genetics of Fluoroquinolone Resistance in Mycobacterium tuberculosis 455
    Claudine Mayer and Howard Takiff

24. Mechanisms of Pyrazinamide Action and Resistance 479
    Ying Zhang, Wanliang Shi, Wenhong Zhang, and Denis Mitchison

25. Genetic Strategies for Identifying New Drug Targets 493
    Andrej Trauner, Christopher M. Sassetti, and Eric J. Rubin

    VI. Genetics of Membrane and Cell Wall Biosynthesis

26. Genetics of Peptidoglycan Biosynthesis 513
    Martin S. Pavelka, Jr., Sebabrata Mahapatra, and Dean C. Crick

27. Genetics of Mycobacterial Arabinogalactan and Lipoarabinomannan Assembly 535
    Monika Jankute, Shipra Grover, Helen L. Birch, and Gurdyal S. Besra

28. Genetics of Capsular Polysaccharides and Cell Envelope (Glyco)lipids 559
    Mamadou Daffe, Dean C. Crick, and Mary Jackson

29. The Molecular Genetics of Mycolic Acid Biosynthesis 611
    Jakub Pawe czyk and Laurent Kremer

    VII. Genetics of Macromolecular Biosynthesis

30. Nucleotide Metabolism and DNA Replication 635
    Digby F. Warner, Joanna C. Evans, and Valerie Mizrahi

31. Double-Strand DNA Break Repair in Mycobacteria 657
    Michael S. Glickman

32. The Pup-Proteasome System of Mycobacteria 667
    Nadine J. Bode and K. Heran Darwin

33. Mycobacterium tuberculosis Serine/Threonine Protein Kinases 681
    Sladjana Prisic and Robert N. Husson

    VIII. The Mycobacterial Lifestyle, Persistence, and Macrophage Survival

34. The Spectrum of Drug Susceptibility in Mycobacteria 711
    Bree B. Aldridge, Iris Keren, and Sarah M. Fortune

35. The Sculpting of the Mycobacterium tuberculosis Genome by Host Cell-Derived Pressures 727
    David G. Russell, Wonsik Lee, Shumin Tan, Neelima Sukumar, Maria Podinovskaia, Ruth J. Fahey, and Brian C. VanderVen

36. Evasion of Innate and Adaptive Immunity by Mycobacterium tuberculosis 747
    Michael F. Goldberg, Neeraj K. Saini, and Steven A. Porcelli

37. Mycobacterial Biofilms 773
    Jacobs P. Richards and Anil K. Ojha

    Index 785