Bibliography

BIBLIOGRAPHY

104

Bibliography

1. Adams, A., Thorn, J.M., Yamabhai, M., Kay, B.K. and O'Bryan, J.P. (2000). Intersectin, an adaptor protein involved in clathrin-mediated endocytosis, activates mitogenic signaling pathways. J Bioi. Chern. 275: 27414-20

2. Aderem, A. and Underhill, D.M. (1999). Mechanisms of phagocytosis m macrophages. Ann. Rev. Immunol. 17: 593-623

3. Advani, R.J., Bae, H.R., Bock, J.B., Chao, D.S., Doung, Y.C., Prekeris, R., Yoo, J.S. and Scheller, R.H. (1998). Seven novel mammalian SNARE proteins localize to distinct membrane compartments. J Bioi. Chern. 273: 10317-24

4. Ahmad-Nejad, P., Hacker, H., Rutz, M., Bauer, S., Vabulas, R.M. and Wagner, H. (2002). Bacterial CpG-DNA and lipopolysaccharides activate Toll-like receptors at distinct cellular compartments. Eur. J Immunol. 32: 1958-68

5. Alessi, D.R., Saito, Y., Campbell, D.G., Cohen, P., Sithanandam, G., Rapp, U., Ashworth, A., Marshall, C.J. and Cowley, S. (1994). Identification of the sites in MAP kinase kinase-1 phosphorylated by p74 raf-1. EMBO J. 13: 1610-9

6. Alexandrov, K., Horiuchi, H., Steele-Mortimer, 0., Seabra, M.C. and Zerial M. ( 1994 ). Rab escort protein-1 is a multifunctional protein that accompanies newly prenylated Rab proteins to their target membranes. EMBO J 13: 5262-73

7. Ali, B.R., Wasmeier, C., Lamoreux, L., Strom, M. and Seabra, M.C. (2004). Multiple regions contribute to membrane targeting of Rab GTPases. J Cell Sci. 117: 6401-12

8. Alonso, A. and Garcia-del Portillo, F. (2004). Hijacking of eukaryotic functions by intracellular bacterial pathogens. Int. Microbial. 7: 181-91

9. Alvarez-Dominguez, C. and Stahl, P.D. (1998). IFN-y induces Rab5a synthesis and processing in mononuclear cells. J Bioi. Chern. 273: 33901-4

10. Alvarez-Dominguez, C. and Stahl, P.D. (1999). Increased expression of Rab5a correlates directly with accelerated maturation of Listeria monocytogenes phagosomes. J Bioi. Chern. 274: 11459-62

11. Anant, J.S., Desnoyers, L., Machius, M., Demeler, B., Hansen, J.C., Westover, K.D., Deisenhofer, J. and Seabra, M.C. (1998). Mechanism of Rab geranylgeranylation: formation of the catalytic ternary complex. Biochemistry 37: 12559-68

' 105

Bibliography

12. Andres, D.A., Seabra, M.C., Brown, M.S., Armstrong, S.A., Smeland, T.E., Cremers, F.P. and Goldstein, J.L. (1993). eDNA cloning of component A of Rab geranylgeranyl transferase and demonstration of its role as a Rab escort protein. Cell73: 1091-9

13. Andrews, N.W. (1995). Lysosome recruitment during host cell invasion by Trypanosoma cruzi. Trends Cell Bioi. 5: 133-7

14. Antonin, W., Fasshauer, D., Becker, S., Jahn, R. and Schneider, T.R. (2002). Crystal structure of the endosomal SNARE complex reveals common structural principles of all SNAREs. Nat. Struct. Bioi. 9: 107-11

15. Armstrong, J. (2000). Membrane traffic between genomes. Genome Biol. 1(1): reviews 104.1-104.4

16. Baass, P.C., Di Guglielmo, G.M., Authier, F., Posner, B.I. and Bergeron, J.J. (1995). Compartmentalized signal transduction by receptor tyrosine kinases. Trends Cell Biol. 5: 465-70

17. Barbero, P., Bittova, L. and Pfeffer, S.R. (2002). Visualization of Rab9-mediated vesicle transport from endosomes to the trans-Golgi in living cells. J. Cell Biol. 156: 511-8

18. Belkaid, Y., Butcher, B. and Sacks, D.L. (1998). Analysis of cytokine production by inflammatory mouse macrophages at the single-cell level: selective impairment of IL-12 induction in Leishmania-infected cells. Eur. J. Immunol. 28: 1389-400

19. Beltan, E., Borgen, L. and Rastogi, N. (2000). Secretion of cytokines by human macrophages upon infection by pathogenic and non-pathogenic mycobacteria. Microb. Pathog. 28 : 313-8

20. Benrnerah, A. (2004). Endocytosis: Signaling from endocytic membranes to the nucleus. Curr. Biol. 14: R314-6

21. Benrnerah, A., Scott, M., Poupon, V., and Marullo, S. (2003). Nuclear functions for plasma membrane-associated proteins? Traffic 4: 503-11

22. Bermudez, L.E. and Champsi, J. (1993). Infection with Mycobacterium avium induces production of interleukin-10 (IL-10), and administration of anti-IL-10 antibody is associated with enhanced resistance to infection in mice. Infect. Immun. 61: 3093-7

106

Bibliography

23. Bernards, A. and Settleman, J. (2004). GAP control: regulating the regulators of small GTPases. Trends Cell Bioi. 14: 377-85

24. Beutler, B. (2004). Inferences, questions and possibilities in Toll-like receptor signaling. Nature 430: 257-63

25. Blander, J.M. and Medzhitov, R. (2004). Regulation of phagosome maturation by signals from Toll-like receptors. Science 304: 1014-8

26. Blocker, A, Severin, F.F., Burkhardt, J.K., Bingham, J.B., Yu, H., Olivo, J.C., Schroer, T.A., Hyman, A.A. and Griffiths, G. (1997). Molecular requirements for bi-directional movement of phagosomes along microtubules. J Cell Bioi. 137: 113-29

27. Bloom, B.R. and Bennett, B. (1966). Mechanism of a reaction in vitro associated with delayed-type hypersensitivity. Science 153: 80-2

28. Bock, J.B., Matern, H.T., Peden, A.A. and Scheller, R.H. (2001). A genomic perspective on membrane compartment organization. Nature 409: 839- 4

29. Bogdan, C. and Nathan, C. (1993). Modulation of macrophage function by transforming growth factor beta, interleukin-4, and interleukin-10. Ann. NY Acad. Sci. 685: 713-39

30. Boulton, T.G., Yancopoulos, G.D., Gregory, J.S., Slaughter, C., Moomaw, C., Hsu, J. and Cobb, M.H. (1990). An insulin-stimulated protein kinase similar to yeast kinases involved in cell cycle control. Science 249: 64-7

31. Boulton, T.G., Nye, S.H., Robbins, D.J., Ip, N.Y., Radziejewska, E., Morgenbesser DePinho, R.A., Panayotatos, N., Cobb, M.H. and Yancopoulos, G.D. (1991). ERKs: a family of protein-serine/threonine kinases that are activated and tyrosine phosphorylated in response to insulin and NGF. Cell65: 663-75

32. Bourne, H.R., Sanders, D.A. and McCormick, F. (1991). The GTPase superfamily: conserved structure and molecular mechanism. Nature 349: 117-27

33. Bromberg, J. and Darnell, J.E. (2000). The role of STATs in transcriptional control and their impact on cellular function. Oncogene 19: 2468-73

34. Bucci, C., Parton, R.G., Mather, I.H., Stunnenberg, H., Simons, K., Hoflack, B. and Zerial, M. (1992). The small GTPase Rab5 functions as a regulatory factor in the early endocytic pathway. Cell70: 715-28

107

Bibliography

"' 35. Burd, C.G. and Emr, S.D. (1998). Phosphatidylinositol (3)-phosphate signaling mediated by specific binding to RING FYVE domains. Mol. Cell. 2: 157-62

36. Burke, P., Schooler, K. and Wiley, H.S. (2001). Regulation of epidermal growth factor receptor signaling by endocytosis and intracellular trafficking. Mol. Bioi. Cell12: 1897-910

37. Calandra, T., Bernhagen, J., Mitchell, R.A. and Bucala, R. (1994). The macrophage is an important and previously unrecognized source of macrophage migration inhibitory factor. J Exp. Med 179: 1895-902

38. Callaghan, J., Simonsen, A., Gaullier, J-M., Toh, B-H. and Stenrnark, H. (1999). The endosome fusion regulator early-endosome autoantigen 1 (EEA1) is a dimer. Biochem. J 338: 539-43

39. Cantalupo, G., Alifano, P., Roberti, V., Bruni, C.B. and Bucci, C. (2001). Rab­interacting lysosomal protein (RILP): the Rab7 effector required for transport to lysosomes. EMBO J 20: 683-93

40. Carrera, L., Gazzinelli, R.T., Badolato, R., Hieny, S., Muller, W., Kuhn, R. and Sacks, D.L. (1996). Leishmania promastigotes selectively inhibit interleukin-12 induction in bone marrow-derived macrophages from susceptible and resistant mice. J Exp. Med 183: 5~5-26

41. Carroll, K.S., Hanna, J., Simon, I., Krise, J., Barbero, P. and Pfeffer, S.R. (2001). Role of Rab9 GTPase in facilitating receptor recruitment by TIP47. Science 292: 1373-6

42. Cavalli, V., Vilbois, F., Corti, M., Marcote, M., Tamura, K., Karin, M., Arkinstall, J. and Gruenberg, J. (2001). The stress induced MAP kinase p38 regulates endocytic trafficking via GDI: Rab5 complex. Mol. Cell7: 421-32

43. Chan, J., Xing, Y., Magliozzo, R.S. and Bloom, B.R. (1992). Killing ofvirulent Mycobacterium tuberculosis by reactive nitrogen intermediates produced by activated murine macrophages. J Exp. Med 175: 1111-22

44. Chang, L. and Karin, M. (2001). Mammalian MAP kinase signalling cascades. Nature 410: 37-40

45. Chavrier, P., Parton, R.G., Hauri, H.P., Simons, K. and Zerial, M. (1990). Localization of low molecular weight GTP binding proteins to exocytic and endocytic compartments. Cell62: 317-29

108

Bibliography

46. Chehimi, J., Starr, S.E., Frank, I., D'Andrea, A., Ma, X., MacGregor, R.R., Sennelier, J. and Trinchieri, G. (1994). Impaired interleukin-12 production in human immunodeficiency virus-infected patients. J Exp. Med 179: 1361-6

47. Chen, Z., Gibson, T.B., Robinson, F., Silvestro, L., Pearson, G., Xu, B.E., Wright, A., Vanderbilt, C. and Cobb, M.H. (2001). MAP kinases. Chern. Rev. 101: 2449-76

48. Cheng, M., Boulton, T.G. and Cobb, M.H. (1996). ERK3 is a constitutively nuclear protein kinase. J Biol. Chem. 271: 8951-8

49. Chiu, V.K., Bivona, T., Hach, A., Sajous, J.B. and Silletti, J. (2002). Ras signalling on the endoplasmic reticulum and the Golgi. Nat. Cell Biol. 4: 343-50

50. Christoforidis, S., McBride, H.M., Burgoyne, R.D. and Zerial, M. (1999). The Rab5 effector EEA1 is a core component of endosome docking and fusion. Nature 397: 621-5

51. Colicelli, J. (2004). Human RAS superfamily proteins and related GTPases. Sci. STKERE13

52. Collins, K.M., Thomgren, N.L., Fratti, R.A. and Wickner, W.T. (2005). Sec17p and HOPS, in distinct SNARE complexes, mediate SNARE complex disruption or assembly for fusion. EMBO J 24: 1775-86

53. Cooper, A.M., Dalton, D.K., Stewart, T.A., Griffin, J.P., Russell, D.G. and Orme, I.M. (1993). Disseminated tuberculosis in interferon gamma gene­disrupted mice. J Exp. Med 178: 2243-8

54. Cooper, A.M., Roberts, A.D., Rhoades, E.R., Callahan, J.E., Getzy, D.M. and Orme, I.M. (1995). The role of interleukin-12 in acquired immunity to Mycobacterium tuberculosis infection.Jmmunol. 84: 423-32

55. Cossart, P. and Lecuit, M. (1998). Interactions of Listeria monocytogenes with mammalian cells during entry and actin-based movement: bacterial factors, cellular ligands and signaling. EMBO J 17: 3797-806

56. Courchesne, W.E., Kunisawa, R. and Thorner, J. (1989). A putative protein kinase overcomes pheromone-induced arrest of cell cycling in S. cerevisiae. Cell 58: 1107-19

109

Bibliography

57. Crews, C., Alessandrini, A. and Erikson, R. (1992). The primary structure of MEK, a protein kinase that phosphorylates the ERK gene product. Science 258: 478-80

58. Daaka, Y., Luttrell, L.M., Ahn, S., Della Rocca, G.J. and Ferguson, S.S. (1998). Essential role for G protein-coupled receptor endocytosis in the activation of mitogen-activated protein kinase. J Biol. Chem. 273: 685-88

59. Dan, 1., Watanabe, N.M. and Kusumi, A. (2001). The Ste20 group kinases as regulators ofMAP kinase cascades. Trends Cell Bioi. 11: 220-30

60. Dautry-Varsat, A., Eugenia Balana, M. and Wyplosz, B. (2004). Chlamydia­host cell interactions: recent advances on bacterial entry and intracellular development. Traffic 5: 561-70

61. DeFea, K.A., Zalevsky, J., Thoma, M.S., Dery, 0., Mullins, R.D. and Bunnett, N.W. (2000). ~-arrestin-dependent endocytosis of proteinase-activated receptor 2 is required for intracellular targeting of activated ERK1/2. J Cell Biol.l48: 1267-81

62. de Jong, R., Altare, F., Haagen, I.A., Elferink, D.G., Boer, T., van Breda Vriesman, P.J., Kabel, P.J., Draaisma, J.M., van Dissel, J.T., Kroon, F.P., Casanova, J.L. and Ottenhoff, T.H. (1998). Severe mycobacterial and Salmonella infections in interleukin-12 receptor-deficient patients. Science 280: 1435-8

63. Della Rocca, G. J., Mukhin, Y. V., Garnovskaya, M. N., Daaka, Y., Clark, G. J., Luttrell, L. M., Raymond, J. R. (1999). Serotinin 5-HT1A receptor mediated ERK activation requires calcium/calmodulin dependent receptor endocytosis. J Bioi. Chem. 274: 4749-53

64. Deneka, M., Neeft, M. and van der Sluijs, P. (2003). Regulation of membrane transport by Rab GTPases. Crit. Rev. Biochem. Mol. Bioi. 38: 121-42

65. Desjardins, M., Huber, L.A., Parton, R.G. and Griffiths, G. (1994). Biogenesis of phagolysosomes proceeds through a sequential series of interactions with the endocytic apparatus. J Cell Biol. 124: 677-88

66. Diaz, E. and Pfeffer, S.R. (1998). TIP47: a cargo selection device for mannose 6-phosphate receptor trafficking. Cell93: 433-43

67. Di Guglielmo, G.M., Baass, P.C., Ou, W.J., Posner, B.I. and Bergeron, J.J. (1994). Compartmentalization of SHC, GRB2 and mSOS, and

110

Bibliography

hyperphosphorylation of Raf-1 by EGF but not insulin in liver parenchyma. EMBO J 13: 4269-77

68. Di Guglielmo, G.M., Le Roy, C., Goodfellow, A.F. and Wrana, J.L. (2003). Distinct endocytic pathways regulate TGF-~ receptor signaling and turnover. Nat. Cell Biol. 5: 410-21

69. Doherty, T.M. (1995). T-cell regulation of macrophage function. Curr. Opin. Immunol. 7: 400-4

70. Eferl, R. and Wagner, E.F. (2003). AP-1: a double-edged sword m tumorigenesis. Nat. Rev. Cancer 3: 859-68

71. Etienne-Manneville, S. and Hall, A. (2002). Rho GTPases in cell biology. Nature 420: 629-35

72. Fasshauer, D., Sutton, R.B., Brunger, AT. and Jahn, R. (1998). Conserved structural features of the synaptic fusion complex: SNARE proteins reclassified as Q- and R-SNAREs. Proc. Nat!. Acad Sci. US. A. 95: 15781-6

73. Feng, Y., Press, B. and Wandinger-Ness, A. (1995). Rab7: an important regulator oflate endocytic membrane traffic. J Cell Biol. 131: 1435-52

74. Feng, G.J., Goodridge, H.S., Harnett, M.M., Wei, X.Q., Nikolaev, A.V., Higson, A.P. and Liew, F.Y. (1999). Extracellular signal-related kinase (ERK) and p38 mitogen-activated protein (MAP) kinases differentially regulate the lipopolysaccharide-mediated induction of inducible nitric oxide synthase and IL-12 in macrophages: Leishmania phosphoglycans subvert macrophage IL-12 production by targeting ERK MAP kinase. J Immunol. 163: 6403-12

75. Ferrell, J.E., Jr. (1996). Tripping the switch fantastic: how a protein kinase cascade can convert graded inputs into switch-like outputs. Trends Biochem. Sci. 21: 460-6

76. Flesch, I.E. and Kaufmann, S.H. (1990). Activation of tuberculostatic macrophage functions by gamma interferon, interleukin-4, and tumor necrosis factor. Infect. Immun. 58: 2675-7

77. Flesch, I.E., Hess, J.H., Oswald, I.P. and Kaufmann, S.H. (1994). Growth inhibition of Mycobacterium bovis by IFN-y stimulated macrophages: regulation by endogenous tumor necrosis factor-a and by IL-l 0. Int. Immunol. 6: 693-700

111

Bibliography

78. Flynn, J.L., Chan, J., Triebold, K.J., Dalton, D.K., Steward, T.A. and Bloom, B. R. (1993). An essential role for interferon gamma in resistance to Mycobacterium tuberculosis infection. J Exp. Med 178: 2249-54

79. Flynn, J.L., Goldstein, M.M., Chan, J., Triebold, K.J., Pfeffer, K., Lowenstein, C.J., Schreiber, R., Mak, T.W. and Bloom, B.R. (1995). Tumor necrosis factor­a is required in the protective immune response against Mycobacterium tuberculosis in mice. Immunity 2: 561-72

80. Fratti, R.A., Chua, J. and Deretic, V. (2003). Induction ofp38 mitogen-activated protein kinase reduces early-endosome autoantigen 1 (EEA1) recruitment to phagosomal membranes. J Bioi. Chern. 278: 46961-67

81. Fukuda, M. (2003 ). Distinct rab binding specificity of rim 1, rim2, rabphilin, and noc2. Identification of a critical determinant of rab3a/rab27a recognition by rim2. J Bioi. Chern. 278: 15373-80

82. Gallwitz, D., Donath, C. and Sander, C. (1983). A yeast gene encoding a protein homologous to the human c-has/bas proto-oncogene product. Nature 306: 704-7

83. Garcia-del Portillo, F. and Finlay, B.B. (1995). The varied lifestyles of intracellular pathogens within eukaryotic vacuolar compartments. Trends Microbial. 3: 373-80

84. Gaullier, J.M., Simonsen, A., D' Arrigo, A., Bremnes, B. and Stenmark, H. (1998). FYVE fingers bind Ptdins(3)P. Nature 394: 432-3

85. Gazzinelli, R.T., Wysocka, M., Hayashi, S., Denkers, E.Y., Hieny, S., Caspar, P., Trinchieri, G. and Sher, A. (1994). Parasite-induced IL-12 stimulates early IFN-gamma synthesis and resistance during acute infection with Toxoplasma gondii. J Immunol. 153: 2533-43

86. Giacomini, E., Iona, E., Ferroni, L., Miettinen, M., Fattorini, L., Orefici, G., Ju1kunen, I. and Coccia, E.M. (2001). Infection of human macrophages and dendritic cells with Mycobacterium tuberculosis induces a differential cytokine gene expression that modulates T cell response. J Immunol. 166: 7033-41

87. Gillingham, A.K. and Munro, S. (2003). Long coiled-coil proteins and membrane traffic. Biochem. Biophys. Acta. 1641: 71-85

88. Gold, J.A., Hoshino, Y., Hoshino, S., Jones, M.B., Nolan, A. and Weiden, M. D. (2004). Exogenous Gamma and Alpha/Beta Interferon rescues human macrophages from cell death induced by Bacillus anthracis. Infect. Immun. 72: 1291-7

112

Bihliographv

89. Goldstein, J.L., Brown, M.S., Anderson, R.G.W., Russell, D.W. and Schneider, · W.J. (1985). Receptor-mediated Endocytosis: Concepts emerging from the

LDL Receptor System. Ann. Rev. Cell Biol. 1: 1-39

90. Gonzalez-Gaitan, M. (2003). Signal dispersal and transduction through the endocytic pathway. Nat. Rev. Mol. Cell Biol. 4: 213-24

91. Gorvel, J.M., Chavrier, P., Zerial, M. and Gruenberg, J. (1991). Rab5 controls early endosome fusion in vitro. Cell64: 915-25

92. Goud, B., Salminen, A., Walworth, N.C. and Novick, P.J. (1988). A GTP binding protein required for secretion rapidly associates with secretory vesicles and plasma membrane in Yeast. Cell 53: 753-68

93. Goud, B., Zahraoui, A., Tavitian, A. and Saraste, J. (1990). Small GTP-binding protein associated with Golgi cisternae. Nature 345: 553-6

94. Greenberg, S. and Grinstein, S. (2002). Phagocytosis and innate immunity. Curr. Opin. Immunol. 14: 136-45

95. Greenberger, M.J., Strieter, R.M., Kunkel, S.L., Danforth, J.M., Goodman, R.E., and Standiford, T.J. (1995). Neutralization of IL-10 increases survival in a murine model of Klebsiella pneumonia. J Immunol. 155: 722-9

96. Greenberger, M.J., Kunkel, S.L., Strieter, R.M., Lukacs, N.W., Bramson, J., Gauldie, J., Graham, F.L., Hitt, M., Danforth, J.M. and Standiford, T.J. (1996). IL-12 gene therapy protects mice in lethal Klebsiella pneumonia. J Immunol. 157: 3006-12

97. Grimes, M.L., Zhou, J., Beattie, E.C., Yuen, E.C. and Hall, D.E. (1996). Endocytosis of activated TrkA: evidence that nerve growth factor induces formation of signaling endosomes. J Neurosci. 16: 7950-64

98. Gupta-Rossi, N., Six, E., LeBail, 0., Logeat, F. and Chastagner, P. (2004). Monoubiquitination and endocytosis direct gamma-secretase cleavage of activated Notch receptor. J Cell Biol. 166: 73-83

99. Hackstadt, T. (2000). Redirection of host vesicle trafficking ·pathways by intracellular parasites. Traffic 1: 93-9

100. Hashim, S., Mukherjee, K., Raje, M., Basu, S. K. and Mukhopadhyay, A. (2000). Live Salmonella modulate the expression of Rab proteins to persist in a

113

Bibliography

specialized compartment and escape transport to lysosomes. J Bioi. Chern. 275: 16281-8

101. Hass, A., Scheglmann, D., Lazar, T., Gallwitz, D. and Widmer, W: (1995). The GTPase Ypt7 of Saccharomyces cerevisiae is required on both partner vacuoles for the homotypic fusion step of vacuole inheritance. EMBO J 14: 5258-70

102. Hayes, S., Chawla, A. and Corvera, S. (2002). TGF-~ receptor internalization into EEA1-enriched early endosomes: role in signaling to Smad2. J Cell Bio/.158: 1239-49

103. Heinzel, F.P., Schoenhaut, D.S., Rerko, R.M., Rosser, L.E. and Gately, M.K. (1993). Recombinant interleukin-12 cures mice infected with Leishmania major. J Exp. Med. 177: 1505-9

104. Heinzen, R.A., Grieshaber, S.S., Van Kirk, L.S. and Devin, C.J. (1999). Dynamics of actin-based movement by Rickettsia rickettsii in vero cells. Infect. Immun. 67: 4201-7

105. High, N., Mounier, J., Prevost, M.C. and Sansonetti, P.J. (1992). IpaB of Shigella jlexneri causes entry into epithelial cells and escape from the phagocytic vacuole. EMBOJ 11: 1991-9

106. Hirano, T. (1998). IL-6 and its receptor: 10 years later. Int. Rev. Immunol. 16: 249-84

107. Horiuchi, H., Lippe, R., McBride, H., Rubino, M., Woodman, P., Stenmark, H., Rybin, V., Wilm, M., Ashman, K., Mann, M. and Zerial, M. (1997). A novel Rab5 GDP: GTP exchange factor complexed to Rabaptin-5 links nucleotide exchange to effector recruitment and function. Cell90: 1149-59

108. Hornef, M.W., Wick, M.J., Rhen, M and Normark, S. (2002). Bacterial strategies for overcoming host innate and adaptive immune responses. Nat. Immunol. 3: 1033-40

109. Howe, D. and Mallavia, L.P. (2000). Coxiella burnetii exhibits morphological change and delays phagolysosomal fusion after internalization by J774A.1 Cells. Infect. Immun. 68: 3815-21

110. Howe, C.L., Valletta, J.S., Rusnak, A.S. and Mobley, W.C. (2001). NGF signaling from clathrin-coated vesicles: evidence that signaling endosomes serve as a platform for the Ras-MAPK pathway. Neuron 32: 801-14

114

Bibliography

111. Hsieh, C.S., Macatonia, S.E., Tripp, C.S., Wolf, S.F., 0 'Garra, A. and Murphy, K.M. (1993). Development of THI CD4+T cells through IL-12 produced by Listeria-induced macrophages. Science 260: 547-9

112. Huang, C.C., You, J.L., Wu, M.Y. and Hsu, K.S. (2004). Rapl-induced p38 mitogen-activated protein kinase activation facilitates AMP A receptor trafficking via the GDI: Rab5 complex: potential role in (S)-3,5-dihydroxyphenylglycine-induced long-term depression. J Bioi. Chern. 279: 12286-92

113. Hyman, J., Chen, H., DiFiore, P.P., De Camilli, P., and Brunger, A.T. (2000). Epsin 1 undergoes nucleocytosolic shuttling and its eps 15 interactor NH(2)­terminal homology (ENTH) domain, structurally similar to Armadillo and HEAT repeats, interacts with the transcription factor promyelocytic leukemia znC2)+ finger protein (PLZF). J Cell Bioi. 149: 537-46

114. Jiang, X. and Sorkin, A. (2002). Coordinated traffic of Grb2 and Ras during epidermal growth factor receptor endocytosis visualized in living cells. Mol. Bioi. Cel/13:1522-35

115. Jordens, I., Fernandez-Borja, M., Marsman, M., Dusseljee, S., Janssen, L., Calafat, J., Janssen, H., Wubbolts, R. and Neefjes, J. (2001). The Rab7 effector protein RILP controls lysosomal transport by inducing the recruitment of dynein-dynactin motors. Curr. Bioi. 11: 1680-5

116. Kamakura, S., Moriguchi, T. and Nishida, E. (1999). Activation ofthe protein kinase ERK5/BMK1 by receptor tyrosine kinases. Identification and characterization of a signaling pathway to the nucleus. J Bioi. Chern. 274: 26563-71

117. Kaplan, M.H., Sun, Y.L., Hoey, T. and Grusby, M.J. (1996). Impaired IL-12 responses and enhanced development of TH2 cells in Stat4-deficient mice. Nature 382: 174-7

118. Karin, M. (1995). The regulation of AP-1 Activity by Mitogen-activated Protein Kinases. J Bioi. Chern. 270: 16483-6

119. Karin, M., Liu, Z. and Zandi, E. (1997). AP-I function and regulation. Curr. Opin. Cell Bioi. 9: 240-6

120. Karp, C.L., Wysocka, M., Wahl, L.M., Ahearn, J.M., Cuomo, P.J., Sherry, B., Trinchieri, G. and Griffin, D.E. (1996). Mechanism of suppression of cell­mediated immunity by measles virus. Science 273: 228-31

115

Bibliography

121. Kato, Y., Kravchenko, V.V., Tapping, R.I., Han, J., U1evitch, R.J. and Lee, J.D. (1997). BMK1/ERK5 regulates serum-induced early gene expression through transcription factor MEF2C. EMBO J. 16: 7054-66

122. Kaya1, S., Lilienbaum, A., Poyart, C., Memet, S., Israel, A. and Berche, P. (1999). Listeriolysin 0-dependent activation of endothelial cells during infection with Listeria monocytogenes: activation ofNF-KB and upregulation of adhesion molecules and chemokines. Mol. Microbial. 31: 1709-22

123. Kayal, S., Lilienbaum, A., Join-Lambert, 0., Li, X., Israel, A., Berche, P. (2002). Listeriolysin 0 secreted by Listeria monocytogenes induces NF-KB signalling by activating the IKB kinase complex. Mol. Microbial. 44: 1407-19

124. Knodler, L.A. and Steele-Mortimer, 0. (2003). Taking possession: biogenesis of the Salmonella-containing vacuole. Traffic 4: 587-99

125. Kolch, W. (2000). Meaningful relationships: the regulation of the Ras/Raf/ MEKIERK pathway by protein interactions. Biochem. J 351: 289-305

126. Kosako, H., Gotoh, Y., Matsuda, S., Ishikawa, M. and Nishida, E. (1992). Xenopus MAP kinase activator is a serine/threonine/tyrosine kinase activated by threonine phosphorylation. EMBO J 11: 2903-8

127. Kranenburg, 0., Verlaan, I. and Moolenaar, W.H. (1999). Dynamin is required for the activation of mitogen-activated protein (MAP) kinase by MAP kinase kinase. J Bioi. Chem. 274: 35301-4

128. Kyriakis, J.M. and Avruch, J. (2001). Mammalian Mitogen-Activated Protein Kinase signal transduction pathways activated by stress and inflammation. Physiol. Rev. 81: 807-69

129. Le Borgne, R., Bardin, A. and Schweisguth, F. (2005). The roles of receptor and ligand endocytosis in regulating Notch signaling. Development 132: 1751-62

130. Leonard, W.J. and O'Shea, J.J. (1998). JAKS AND STATS: biological implications. Ann. Rev. Immunol. 16: 293-322

131. Li, G. and Stahl, P.D. (1993). Post-translational processing and membrane association of the two early endosome-associated Rab GTP-binding proteins (Rab4 and Rab5). Arch. Biochem. Biophys. 304: 471-8

116

Bibliography

132. Lombardi, D., Soldati, T., Riederer, M.A., Goda, Y., Zerial, M. and Pfeffer, S.R. (1993). Rab9 functions in transport between late endosomes and the trans­Golgi network. EMBO J 12: 677-82

133. Luttrell, L.M., Roudabush, F.L., Choy, E.W., Miller, W.E. and Field, M.E. (2001). Activation and targeting of extracellular signal-regulated kinases by~­arrestin scaffolds. Proc. Nat!. Acad. Sci. U S. A. 98: 2449-54

134. Mace, G., Miaczynska, M., Zerial, M. and Nebreda, A.R. (2005). Phosphorylation of EEA1 by p38 MAP kinase regulates 11 opioid receptor endocytosis. EMBO J 24: 3235-46

135. Maosong, Q. and Elaine, A.E. (2005). MAP kinase pathways. J Cell Sci. 118: 3569-72

136. Mattner, F., Magram, J., Ferrante, J., Launois, P., Di Padova, K., Behin, R. Gately, M.K., Louis, J.A. and Alber, G. (1996). Genetically resistant mice lacking interleukin-12 are susceptible to infection with Leishmania major and mount a polarized Th2 cell response. Eur. J Immunol. 26: 1553-9

137. Maxfield, F. R. and McGraw, T. E. (2004). Endocytic recycling. Nat. Rev. Mol. Cell Bioi. 5: 121-32

138. Mayer, A., Wickner, W. and Haas, A. (1996). Sec18p (NSF)-driven release of Sec17p (alpha-SNAP) can precede docking and fusion of yeast vacuoles. Cell 85: 83-94

139. McDonald, P.H., Chow, C.W., Miller, W.E., Laporte, S.A. and Field, M.E. (2000). P-arrestin 2: a receptor-regulated MAPK scaffold for the activation of JNK3. Science 290: 1574-7

140. McGuirk, P., McCann, C. and Mills, K.H.G. (2002). Pathogen-specific T regulatory 1 cells induced in the respiratory tract by a bacterial molecule that stimulates interleukin-1 0 production by dendritic cells: a novel strategy for evasion of protective T helper type 1 responses by Bordetella pertussis. J Exp. Med. 195:221-31

141. McPherson, P. S., Kay, B. K. and Hussain, N. K. (2001). Signaling on the endocytic pathway. Traffic 2: 375-84

142. Melby, P.C., Yang, Y.Z., Cheng, J. and Zhao, W. (1998). Regional differences in the cellular immune response to experimental cutaneous or visceral infection with Leishmania donovani. Infect. Immun. 66: 18-27

117

Bibliography

143. Meresse, S., Steele-Mortimer, 0., Moreno, E., Desjardins, M., Finlay, B. and Gorvel, J. (1999). Controlling the maturation of pathogen-containing vacuoles: a matter oflife and death. Nat. Cell Bioi. 1: E183-8

144. Memon, A.R. (2004). The role of ADP-ribosylation factor and SARI m vesicular trafficking in plants. Biochem. Biophys. Acta. 1664: 9-30

145. Miaczynska, M., Pelkmans, L. and Zerial, M. (2004a). Not just a sink: endosomes in control of signal transduction. Curr. Opin. Cell Bioi. 16: 400-6

146. Miaczynska, M., Christoforidis, S., Shevchenko, A., Uttenweiler-Joseph, S., Habermann, B., Wilm, M., Parton, R.G., and Zerial, M. (2004b). APPL proteins link Rab5 to nuclear signal transduction via endosomal compartment. Cellll6: 445-56

147. Mills, I.G., Jones, A.T. and Clague, M. (1998). Involvement of the endosomal autoantigen EEAl in homotypic fusion of early endosomes. Curr. Bioi. 15: 881-4

148. Mishra, S., Smolik, S.M., Forte, M.A. and Stork, P.J. (2005). Ras-independent activation of ERK signaling via the torso receptor tyrosine kinase is mediated by Rap 1. Curr. Bioi. 15: 366~ 70

149. Mizuno, K., Kitamura, A. and Sasaki, T. (2003). Rabring7, a novel Rab7 target protein with a RING finger motif. Mol. Bioi. Cell. 14: 3741-52

150. Moore, I., Schell, J. and Palme, K. (1995). Subclass-specific sequence motifs identified in Rab GTPases. Trends Biochem. Sci. 20: 10-2

151. Mor, A. and Philips, M.R. (2006). Compartmentalized Ras/MAPK Signaling. Ann. Rev. Immunol. 24: 771-800

152. Morrison, D.K. and Davis, R.J. (2003). Regulation of MAP kinase signaling modules by scaffold proteins in mammals. Ann. Rev. Cell Dev. Bioi. 19: 91-118

153. Morton, S., Davis, R.J., McLaren, A., and Cohen, P. (2003). A reinvestigation of the multisite phosphorylation of the transcription factor c-Jun. EMBO J 22: 3876-86

154. Mosser, D.M. and Karp, C.L. (1999). Receptor mediated subversion of macrophage cytokine production by intracellular pathogens. Curr. Opin. Immunol. 11: 406-11

118

Bibliography

155. Mukhopadhyay, A., Barbieri, A.M., Funato, K., Roberts, R. and Stahl, P.D. (1997a). Sequential actions of Rab5 and Rab7 regulate endocytosis in the Xenopus oocyte. J Cell Bioi. 136: 1227-37

156. Mukhopadhyay, A., Funato, K. and Stahl, P.D. (1997b). Rab7 regulates transport from early to late endocytic compartments in Xenopus oocytes. J Bioi. Chem. 272: 13055-9

157. Mukherjee, K., Siddiqi, S.A., Hashim, S., Raje, M., Basu, S.K. and Mukhopadhyay, A. (2000). Live Salmonella recruits N-ethylmaleimide­sensitive fusion protein on phagosomal membrane and promotes fusion with early endosome. J Cell Bioi. 148: 741-53

158. Mukherjee, K., Parashuraman, S., Raje, M. and Mukhopadhyay, A. (2001). SopE acts as an Rab5 specific exchange factor and recruits non-prenylated Rab5 on Salmonella-containing phagosomes to promote fusion with early endosomes. J Bioi. Chem. 276: 23607-15

159. Mukherjee, K., Parashuraman, S., Krishnamurthy, G., Majumdar, J., Yadav, A., Kumar, R., Basu, S.K., and Mukhopadhyay, A. (2002). Diverting intracellular trafficking of Salmonella to the lysosome through activation of the late endocytic Rab7 by intracellular delivery of muramyl dipeptide. J Cell Sci. 115: 3693-701

160. Murray, R.Z., Kay, J.G., Sangermani, D.G. and Stow, J.L. (2005). A Role for the phagosome in cytokine secretion. Science 310: 1492-5

161. Nesterov, A., Lysan, S., Vdovina, 1., Nikolsky, N. and Fujita, D.J. (1994). Phosphorylation of the epidermal growth factor receptor during internalization in A-431 cells. Arch. Biochem. Biophys. 313: 351-9

162. Nielsen, E., Christoforidis, S., Uttenweiler-Joseph, S., Miaczynska, M., Dewitte, F., Wilm, M., Hoflack, B. and Zerial, M. (2000). Rabenosyn-5, a novel Rab5 effector, is complexed with h VPS45 and recruited to endosomes through a FYVE finger domain. J Cell Bioi. 151: 601-12

163. Newport, M.J., Huxley, C.M., Huston, S., Hawrylowicz, C.M., Oostra, B.A., Williamson, R. and Levin, M. (1996). A mutation in the Interferon-y -Receptor gene and susceptibility to Mycobacterial infection. N Engl. J Med. 335: 1941-9

164. Nguyen, L. and Pieters, J. (2005). The Trojan horse: survival tactics of pathogenic mycobacteria in macrophages. Trends Cell Bioi. 15: 269-76

119

Bibliography

165. Oksvold, M.P., Skarpen, E., Wierod, L., Paulsen, R.E. and Huitfeldt, H.S. (2001). Re-localization of activated EGF receptor and its signal transducers to multivesicular compartments downstream of early endosomes in response to EGF. Eur. J Cell Bioi. 80: 285-94

166. O'Neill, L.A.J. (2006). How Toll-like receptors signal: what we know and what we don't know. Curr. Opin. Immunol. 18: 3-9

167. Orth, K., Palmer, L.E., Bao, Z.Q., Stewart, S., Rudolph, A.E., Bliska, J.B., Dixon, J.E. (1999). Inhibition of the mitogen-activated protein kinase kinase superfamily by a Yersinia effector. Science 285: 1920-3

168. Papavassiliou, A.G., Treier, M. and Bohmann, D. (1995). Intramolecular signal transduction inc-Jun. EMBO J 14: 2014-9

169. Parks, A.L., Klueg, K.M., Stout, J.R. and Muskavitch, M.A. (2000). Ligand endocytosis drives receptor dissociation and activation in the Notch pathway. Development 127: 1373-85

170. Patki, V., Lawe, D.C., Corvera, S., Virbasius, J.V. and Chawla, A. (1998). A functional Ptdins (3) P-binding motif. Nature 394: 433-4

171. Pearson, G., Robinson, F., Gibson, T.B., Xu, B., Karandikar, M., Berman, K. and Cobb, M.H. (2001). Mitogen-Activated Protein (MAP) Kinase Pathways: regulation and physiological functions. Endocrine Rev. 22: 153-83

172. Pelkmans, L., Fava, E., Grabner, H., Hannus, M., Habermann, B., Krausz, E. and Zerial, M. (2005). Genome-wide analysis of human kinases in clathrin- and caveolae/raft-mediated endocytosis. Nature 436: 78-86

173. Pelkmans, L. and Zerial, M. (2005). Kinase-regulated quantal assemblies and kiss-and-run recycling of caveolae. Nature 436: 128-33

174. Pereira-Leal, J.B. and Seabra, M.C. (2000). The mammalian Rab family of small GTPases: definition of family and subfamily sequence motifs suggests a mechanism for functional specificity in the Rab superfamily. J Mol. Bioi. 301: 1077-87

175. Pereira-Leal, J.B. and Seabra, M.C. (2001). Evolution ofthe Rab family of small GTP-binding proteins. J Mol. Bioi. 313: 889-901

120

Bibliography

176. Pfeffer, L.M., Mullersman, J.E., Pfeffer, S.R., Murti, A., Shi, W. and Yang, C.H. (1997). STAT3 as an adapter to couple phosphatidylinositol 3-kinase to the IFNAR1 chain ofthe type I interferon receptor. Science 276: 1418-20

177. Pfeffer, S.R. (2001). Rab GTPases: specifying and deciphering organelle identity and function. Trends Cell Bioi. 11: 487-91

178. Pfeffer, S.R. (2005). Structural clues to Rab GTPase functional diversity. J Bioi. Chem. 280: 15485-88

179. Pfeffer, V. and AivaziatP D. (2004). Targeting Rab GTPases to distinct membrane compartments. Nat. Rev. Mol. Cell Bioi. 5: 886-96

180. Pizarro-Cerda, J., Desjardins, M., Moreno, E., Akira, S. and Gorvel, J.P. (1999). Modulation of endocytosis in nuclear factor IL-6 (-/-) macrophages is responsible for a high susceptibility to intracellular bacterial infection. J Immunol. 162: 3519-26

181. Polo, S. and Di Fiore, P .P. (2006). Endocytosis conducts the cell signaling orchestra. Cell124: 897-900

182. Poupon, V., Polo, S., Vecchi, M., Martin, G., Dautry-Varsat, A., Cerf­Bensussan, N., Di Fiore, P.P., and Benmerah, A. (2002). Differential nucleocytoplasmic trafficking between the related endocytic proteins Eps 15 and Eps15R. J Bioi. Chem. 277: 8941-8

183. Prada-Delgado, A., Carrasco-Marin, E., Bokoch, G.M. and Alvarez-Dominguez, C. (2001). IFN-y listericidal action is mediated by novel rab5a functions at the phagosomal environment. J Bioi. Chem. 276: 19059-65

184. Pramanik, R., Qi, X., Borowicz, S., Choubey, D., Schultz, R. M., Han, J. and Chen, G. (2003). p38 Isoforms have opposite effects on AP-1-dependent transcription through regulation of c-Jun. The determinant role of the isoforms in the p38 MAPK signal specificity. J Bioi. Chem. 278: 4831-9

185. Presky, D.H., Yang, H., Minetti, L.J., Chua, A.O., Nabavi, N., Wu, C., Gately, M.K. and Gubler, U. (1996). A functional interleukin-12 receptor complex is composed of two ~-type cytokine receptor subunits. Proc. Natl. A cad. Sci. U S. A. 93: 14002-7

186. Quatela, S.E. and Philips, M.R. (2006). Ras signaling on the Golgi. Curr. Opin. Cell Bioi. 18: 162-7

121

Bibliography

187. Qi, M. and Elion, E.A. (2005). MAP kinase pathways. J Cell Sci. 118: 3569-72

188. Rarnji, D.P. and Foka, P. (2002). CCAAT/enhancer-binding proteins: structure, function and regulation. Biochem J 365: 561-75

189. Rebollo, A., Perez-Sala, D. and Martinez, A.C. (1999). Bcl-2 differentially targets K-, N- and H-Ras to mitochondria in IL-2 supplemented or deprived cells: implications in prevention of apoptosis. Oncogene 18: 4930-9

190. Redpath, S., Ghazal, P. and Gascoigne, N.R. (2001). Hijacking and exploitation of IL-l 0 by intracellular pathogens. Trends Microbiol. 9: 86-92

191. Remoli, M.E., Giacomini, E., Lutfalla, G., Dondi, E., Orefici, G., Battistin, A., Uze, G., Pellegrini, S. and Coccia, E.M. (2002). Selective Expression of Type I IFN genes in human dendritic cells infected with Mycobacterium tuberculosis. J Immunol. 169: 366-74

192. Repasky, G.A., Chenette, E.J. and Der, C.J. (2004). Renewing the conspiracy theory debate: does Raf function alone to mediate Ras oncogenesis? Trends Cell Bioi. 14: 639-47

193. Riederer, M.A., Soldati, T., Shapiro, A.D., Lin. J. and Pfeffer, S.R. (1994) Lysosome biogenesis requires Rab9 function and receptor recycling from endosomes to the trans-Golgi network. J Cell Bioi. 125: 573-82

194. Rothman, J.E. (1994). Mechanisms of intracellular protein transport. Nature 372: 55-63

195. Rosenberger, C.M. and Finlay, B.B. (2003). Phagocyte sabotage: disruption of macrophage signaling by bacterial pathogens. Nat. Rev. Mol. Cell Biol. 4: 385-96

196. Roux, P.P. and Blenis, J. (2004). ERK and p38 MAPK-Activated Protein Kinases: a family of protein kinases with diverse biological functions. Microbial. Mol. Bioi. Rev. 68: 320-44

197. Roy, S., Wyse, B. and Hancock, J.F. (2002). H-Ras signaling and K-Ras signaling are differentially dependent on endocytosis. Mol. Cell. Bioi. 22: 5128-40

198. Ruckdeschel, K. Harb, S., Roggenkamp, A., Hornef, M., Zumbihl, R., Kohler, S., Heesemann, J. and Rouot, B. (1998). Yersinia enterocolitica impairs activation of transcription factor NF-KB: involvement in the induction of

122

Bibliography

programmed cell death and in the suppression of the macrophage tumor necrosis factor production. J Exp. Med. 187: 1069-79

199. Schaible, U.E., Sturgill-Koszycki, S., Schlesinger, P.H., and Russell, D.G. (1998). Cytokine activation leads to acidification and increases maturation of Mycobacterium avium-containing phagosomes in murine macrophages. J

I

Immunol. 160: 1290-6

200. Schalk, I., Zeng, K., Wu, S.K., Stura, E.A., Matteson, J., Huang, M.D., Tandon, A., Wilson, LA. and Balch, W.E. (1996). Structure and mutational analysis of Rab GDP-:dissociation inhibitor. Nature 381: 42-8

201. Scharton-Kersten, T., Afonso, L.C., Wysocka, M., Trinchieri, G. and Scott, P. (1995). IL-12 is required for natural killer cell activation and subsequent T helper 1 cell development in experimental leishmaniasis. J Immunol. 154: 5320-30

202. Schesser, K., Spiik, A.K., Dukuzumuremyi, J.M., Neurath, M.F., Pettersson, S. and Wolf-Watz, H. (1998). The YopJ locus is required for Yersinia-mediated inhibition of NF-KB activation and cytokine expression: YopJ contains a eukaryotic SH2-like domain that is essential for its repressive activity. Mol. Microbial. 28: 1067-79

203. SchimmOller, F. and Riezmann, H. (1993). Involvement of Ypt7p, a small GTPase, in traffic from late endosome to the vacuole in yeast. J Cell Sci. 106: 823-30

204. Schmidt, A. and Hall, A. (2002). Guanine nucleotide exchange factors for Rho GTPases: turning on the switch. Genes Dev. 16: 1587-609

205. Schwartz, A.L. (1990). Cell biology of intracellular protein trafficking. Ann. Rev. Immunol. 8: 195-229

206. Scott, M.G., Le Rouzic, E., Perianin, A., Pierotti, V., Enslen, H., Beni-chou, S., Marullo, S., and Benmerah, A. (2002). Differential nucleo-cytoplasmic shuttling of beta-arrestins. Characterization of a leucine-rich nuclear export signal in beta-arrestin2. J Bioi. Chern. 277: 37693-701

207. Seabra, M.C., Goldstein, J.L., Sudhof, T.C. and Brown, M.S. (1992). Rab geranylgeranyl transferase. A multisubunit enzyme that prenylates GTP-binding proteins terminating in Cys-X-Cys or Cys-Cys. J Bioi. Chern. 267: 14497-503

208. Seabra, M.C. and Wasmeier, C. (2004). Controlling the location and activation ofRab GTPases. Curr. Opin. Cell Bioi. 16: 451-7

123

Bibliography

209. Segev, N., Mulholland, J. and Botstein, D. (1988). The Yeast GTP binding YPTI protein and a mammalian counterpart are associated with the secretion machinery. Cell 52: 915-24

210. Shaulian, E. and Karin, M. (2002). AP-1 as a regulator of cell life and death. Nat. Cell Bioi. 4: E131-6

211. Simonsen, A., Lippe', R., Christoforidis, S., Gaullier, J.M., Brach, A., Callaghan, J., Toh, B.H., Murphy, C., Zerial, M. and Stenrnark, H. (1998). EEAI links PI(3)K function to Rab5 regulation of endosome fusion. Nature 394: 494-8

212. Sinai, A.P. and Joiner, K.A. (1997). Safe haven: the cell biology of nonfusogenic pathogen vacuoles. Ann. Rev. Microbial. 51: 415-62

213. Sing, A., Roggenkamp, A., Geiger, A.M. and Heesemann, J. (2002). Yersinia enterocolitica evasion of the host innate immune response by V antigen-induced IL-l 0 production of macro phages is abrogated in IL-l 0-deficient mice. J Immunol. 168: 1315-21

214. Sobering, A.K., Romeo, M.J., Vay, H.A. and Levin, D.E. (2003). A novel Ras inhibitor, Eril, engages yeast Ras at the endoplasmic reticulum. Mol. Cell. Bioi. 23: 4983-90

215. Somsel-Rodman, J. and Wandinger-Ness, A. (2000). Rab GTPases coordinate endocytosis. J Cell Sci. 113: 183-92

216. Songyang, Z., Lu, K.P., Kwon, Y.T., Tsai, L.H., Filhol, 0., Cochet, C., Brickey, D.A., Soderling, T.R., Bartleson, C. and Graves, D.J. (1996). A structural basis for substrate specificities of protein Ser/Thr kinases: primary sequence preference of casein kinases I and II, NIMA, phosphorylase kinase, calmodulin­dependent kinase II, CDK5, and Erkl. Mol. Cell. Bioi. 16: 6486-93

217. Sonnichsen, B., De Renzis, S., Nielsen, E., Rietdorf, J. and Zerial, M. (2000). Distinct membrane domains on endosomes in the recycling pathway visualized by multicolor imaging ofRab4, Rab5, and Rabll. J Cell Bioi. 149: 901-14

218. Sorkin, A., McClure, M., Huang, F. and Carter, R. (2000). Interaction of EGF receptor and grb2 in living cells visualized by fluorescence resonance energy transfer (FRET) microscopy. Curr. Bioi. 10: 1395-8

219. Sorkin, A. and Von Zastrow, M. (2002). Signal transduction and endocytosis: close encounters of many kinds. Nat. Rev. Mol. Cell Bioi. 3: 600-14

124

Bibliography

220. Srividya, S., Roy, R.P., Basu, S.K., and Mukhopadhyay, A. (2000). Scavenger receptor-mediated delivery of muramyl dipeptide activates antitumor efficacy of macrophages by enhanced secretion of tumor-suppressive cytokines. J Leukoc. Bioi. 67: 683-90

221. Stamm, L.M., Satoskar, A.A., Ghosh, S.K., David, J.R. and Satoskar, A.R. (1999). STAT -4 mediated IL-12 signaling pathway is critical for the development of protective immunity in cutaneous leishmaniasis. Eur. J Immunol. 29: 2524-9

222. Stenmark, H. and Aasland, R. (1999). FYVE-finger proteins-effectors of an inositol lipid. J Cell Sci. 112: 4175-83

223. Stenmark, H and Olkkonen, V.M. (2001). The Rab GTPase family. Genome Bioi. 2(5): reviews 3007.1-3007.7

224. Stenmark, H., Parton, R.G., Steele-Mortimer, 0., Lutcke, A., Gruenberg, J. and Zerial, M. (1994). Inhibition of Rab5 GTPase stimulates membrane fusion in endocytosis. EMBO J 13: 1287-1296

225. Stenmark, H., Vitale, G., Ullrich, 0. and Zerial, M. (1995). Rabaptin-5 is a direct effector ofthe small GTPase rab5 in endocytic membrane fusion. Cell83: 423-32

226. Swanson, M.S. and Femandez-Moreia, E. (2002). A microbial strategy to multiply in macrophages: the pregnant pause. Traffic 3: 170-7

227. Symons, A., Beinke, S. and Ley, S.C. (2006). MAP kinase kinase kinases and innate immunity. Trends Immunol. 27: 40-8

228. Sypek, J.P., Chung, C.L., Mayor, S.E., Subramanyam, J.M., Goldman, S.J., Sieburth, D.S., Wolf, S.F. and Schaub, R.G. (1993). Resolution of cutaneous leishmaniasis: interleukin 12 initiates a protective T helper type 1 immune response. J Exp. Me d. 177: 1797-802

229. Takeshita, F., Gursel, I., Ishii, K.J., Suzuki, K., Gursel, M. and Klinman, D.M. (2004). Signal transduction pathways mediated by the interaction of CpG DNA with Toll-like receptor 9. Semin. Immunol. 16: 17-22

230. Tanaka, T., Akira, S., Yoshida, K., Umemoto, M., Yoneda, Y., Shirafuji, N., Fujiwara, H., Suematsu, S., Yoshida, N. and Kishimoto, T. (1995). Targeted disruption of the NF-IL6 gene discloses its essential role in bacteria killing and tumor cytotoxicity by macrophages. Cell SO: 353-61

125

Bibliography

231. Teis, D., Wunderlich, W. and Huber, L.A. (2002). Localization of the MP1-MAPK scaffold complex to endosomes is mediated by p 14 and required for signal transduction. Dev. Cell3: 803-14

232. Thierfelder, W.E., van Deursen, J.M., Yamamoto, K., Tripp, R.A., Sarawar, S. R., Carson, R.T., Sangster, M.Y., Vignali, D.A.A., Doherty, P.C., Grosveld, G.C. and Ihle, J.N. (1996). Requirement for Stat4 in interleukin-12-mediated responses of natural killer and T cells. Nature 382: 171-4

233. Toda, T., Shimanuki, M. and Yanagida, M. (1991). Fission yeast genes that confer resistance to staurosporine encode an AP-1-like transcription factor and a protein kinase related to the mammalian ERK1/ MAP2 and budding yeast FUS3 and KSS 1 kinases. Genes Dev. 5: 60-73

234. Tong, X.K., Hussain, N.K., Heuvel, E., Kurakin, A. and Abi-Jaoude, E. (2000). The endocytic protein intersectin is a major binding partner for the Ras exchange factor mSos1 in rat brain. EMBO J 19: 1263-71

235. Torii, S., Kusakabe, M., Yamamoto, T., Maekawa, M. and Nishida, E. (2004). Sef is a spatial regulator for Ras/MAP kinase signaling. Dev. Cell?: 33- 44

236. Toossi, Z., Gogate, P., Shiratsuchi, H., Young, T. and Ellner, J.J. (1995). Enhanced production of TGF-B by blood monocytes from patients with active tuberculosis and presence of TGF -B in tuberculosis granulamotous lung lesions. J Immunol. 154: 465-73

• 237. Touchot, N., Chardin, P. and Tavitian, A. (1987). Four additional members of the ras gene superfamily isolated by an oligonucleotide strategy: molecular cloning ofYPT-related cDNAs from a rat brain library. Proc. Natl. Acad. Sci. U.S.A. 84:8210-4

238. Ullrich, 0., Stenmark, H., Alexandrov, K., Huber, L.A., Kaibuchi, K., Sasaki, T., Takai, Y. and Zerial, M. (1993). Rab GDP dissociation inhibitor as a general regulator for the membrane association of Rab proteins. J Bioi. Chern. 268: 18143-50

239. Ullrich, 0., Horiuchi, H., Bucci, C., and Zerial, M. (1994). Membrane association of Rab5 mediated by GDP-dissociation inhibitor and accompanied by GDP: GTP exchange. Nature 368: 157-61

240. Unanue, E.R. (1997). Studies in listeriosis show the strong symbiosis between the innate cellular system and the T-cell response. Jmmunol. Rev. 158: 11-25

126

Bibliography

241. Underhill, D.M. and Ozinsky, A. (2002). Phagocytosis of microbes: complexity in action. Ann. Rev. Immunol. 20: 825-52

242. Underhill, D.M. and Gantner, B. (2004). Integration of Toll-like receptor and phagocytic signaling for tailored immunity. Microbes. Infect. 6: 1368-73

243. Ungermann, C. and Langosch, D. (2005). Functions of SNAREs in intracellular membrane fusion and lipid bilayer mixing. J Cell Sci.l18: 3819-28

244. Valencia, A., Chardin, P., Wittinghofer, A. and Sander, C. (1991). The Ras protein family: evolutionary tree and role of conserved amino acids. Biochemistry 30: 4639- 48

245. van der Sluijs, P., Hull, M., Zahraoui, A., Tavitian, A., Goud, B. and Mellman, I. (1991). The small GTP-binding protein Rab4 is associated with early endosomes. Proc. Nat!. Acad. Sci. U S. A. 88: 6313-7

246. van Heyningen, T.K., Collins, H.L. and Russell, D.G. (1997). IL-6 produced by macrophages infected with Mycobacterium species suppresses T cell responses. J Immunol. 158: 330-7

247. Vecchi, M., Polo, S., Poupon, V., van de Loo, J.W., Benmerah, A. and DiFiore, P.P. (2001). Nucleocytoplasmic shuttling of endocytic proteins. J Cell Bioi. 153: 1511-7

248. Vetter, I.R. and Wittinghofer, A. (2001). The guanine nucleotide-binding switch in three dimensions. Science 294: 1299-304

249. Via, L.E., Deretic, D., Ulmer, R.J., Hibler, N.S., Huberi, L.A. and Deretic, V. (1997). Arrest of mycobacterial phagosome maturation is caused by a block in vesicle fusion between stages controlled by rab5 and rab7. J Bioi. Chern. 272: 13326-31

250. Via, L.E., Fratti, R.A., McFalone, M., Pagan-Ramos, E., Deretic, D. and Deretic, V. (1998). Effects of cytokines on mycobacterial phagosome maturation. J Cell Sci. 111: 897-905

251. Vieira, A.V., Lamaze, C. and Schmid, S.L. (1996). Control of EGF receptor signaling by clathrin-mediated endocytosis. Science 274: 2086-9

252. Visconti, R., Gadina, M., Chiariello, M., Chen, E.H., Stancato, L.F., Gutkind, J.S. and O'Shea, J.J. (2000). Importance of the MKK6/p38 pathway for interleukin-12-induced STAT4 serine phosphorylation and transcriptional activity. Blood 96: 1844-52

127

Bibliography

253. Vitale, G., Rybin, V., Christoforidis, S., Thomqvist, P., McCaffrey, M., Stenrnark, H. and Zerial, M. (1998). Distinct Rab-binding domains mediate the interaction ofRabaptin-5 with GTP-bound Rab4 and Rab5. EMBO J 17: 1941-51

254. Vogel, J.P. and Isberg, R.R. (1999). Cell biology of Legionella pneumophila. Curr. Opin. Microbiol. 2: 30-4

255. Volger, 0., Nolte, B., Voss, M., Schmidt, M., Jakobs, K. H. and van Koppen, C. J. (1999). Regulation of muscarininc receptor sequestration and function by beta-arrestin. J Bioi. Chern. 274: 12333-8

256. Weber, T., Zemelman, B.V., McNew, J.A., Westermann, B., Gmachl, M., Parlati, F., Sellner, T.H. and Rothman, J.E. (1998). SNAREpins: minimal machinery for membrane fusion. Cell92: 759-72

257. Weimbs, T., Low, S.H., Chapin, S.J., Mostov, K.E., Bucher, P. and Hofmann, K. (1997). A conserved domain is present in different families of vesicular fusion proteins: a new superfamily. Proc. Nat!. Acad Sci. U S. A. 94: 3046-51

258. Weinheber, N., Wolfram, M., Harbecke, D. and Aebischer, T. (1998). Phagocytosis of Leishmania mexicana amastigotes by macrophages leads to a sustained suppression ofiL-12 production. Eur. J Immunol. 28: 2467-77

259. Weis, K. (2003). Regulating access to the genome: nucleocytoplasmic transport throughout the cell cycle. Ce//112: 441-51

260. Wennerberg, K., Rossman, K.L. and Der, C.J. (2005). The Ras superfamily at a glance. J Cell Sci. 118: 843-46

261. Weston, C.R. and Davis, R.J. (2002). The JNK signal transduction pathway. Curr. Opin. Genet. Dev. 12: 14-21

262. Whistler, J. L. and von Zastrow, M. (1999). Dissociation of functional roles of dyanamin in receptor-mediated endocytosis and mitogenic signal transduction. J Bioi. Chern. 274: 24575-8

263. Wichmann, H., Hengst, L. and Gallwitz, D. (1992). Endocytosis in yeast: evidence for the involvement of a small GTP binding protein (Ypt7). Cell 71: 1131-42

264. Widmer, W. and Haas, A. (2000). Yeast homotypic vacuole fusion: a window on organelle trafficking mechanisms. Annu. Rev. Biochem. 69: 247-75

128

Bibliography

265. Wouters, F.S., and Bastiaens, P.I. (1999). Fluorescence lifetime imaging of receptor tyrosine kinase activity in cells. Curr. Bioi. 9: 1127-30

266. Wu, J., Cunha, F.Q., Liew, F.Y. and Weiser, W.Y. (1993a). IL-10 inhibits the synthesis of migration inhibitory factor and migration inhibitory factor­mediated macrophage activation. J lmmunol. 151: 4325-32

267. Wu, J., Harrison, J.K., Vincent, L.A., Haystead, C., Haystead, T.A.J., Michel, H., Hunt, D.F., Lynch, K.R. and Sturgill, T.W. (1993b). Molecular structure of a protein-tyrosine/threonine kinase activating p42 mitogen-activated protein (MAP) kinase: MAP kinase kinase. Proc. Nat!. Acad Sci. U S. A. 90: 173-7

268. Wurster, A.L., Tanaka, T. and Grusby, M.J. (2000). The biology of Stat4 and Stat6. Oncogene 19: 2577-84

269. Zerial, M. and McBride, H. (2001). Rab proteins as membrane organizers. Nat. Rev. Mol. Cell Bioi. 2: 107-17

270. Zhang, Y., Moheban, D.B., Conway, B.R., Bhattacharyya, A. and Segal, R.A. (2000). Cell surface Trk receptors mediate NGF-induced survival while internalized receptors regulate NGF-induced differentiation. J Neurosci. 20: 5671-8

271. Zheng, C-F. and Guan, K. (1994). Activation of MEK family kinases requires phosphorylation of two conserved Ser/Thr residues. EMBO J 13: 1123-31

272. Zuk, P.A. and Elferink, L.A. (2000). Rab15 Differentially regulates early endocytic trafficking. J Bioi. Chern. 275: 26754-64

129