Arias et al. BMC Genomics 2011, 12:390 http://www.biomedcentral.com/1471-2164/12/390 33. Baetz K, Moffat J, Haynes J, Chang M, Andrews B: Transcriptional coregulation by the cell integrity mitogen-activated protein kinase Slt2 and the cell cycle regulator Swi4. Mol Cell Biol 2001, 21:6515-6528. 34. Jung US, Sobering AK, Romeo MJ, Levin DE: Regulation of the yeast Rlm1 transcription factor by the Mpk1 cell wall integrity MAP kinase. Mol Microbiol 2002, 46:781-789. 35. Kim KY, Truman AW, Levin DE: Yeast Mpk1 mitogen-activated protein kinase activates transcription through Swi4/Swi6 by a noncatalytic mechanism that requires upstream signal. Mol Cell Biol 2008, 28:2579-2589. 36. Garcia-Rodriguez LJ, Valle R, Duran A, Roncero C: Cell integrity signaling activation in response to hyperosmotic shock in yeast. FEBS Lett 2005, 579:6186-6190. 37. Bermejo C, Rodriguez E, Garcia R, Rodriguez-Peña JM, Rodriguez de la Concepcion ML, Rivas C, Arias P, Nombela C, Posas F, Arroyo J: The sequential activation of the yeast HOG and SLT2 pathways is required for cell survival to cell wall stress. Mol Biol Cell 2008, 19:1113-1124. 38. Rodriguez-Peña JM, Diez-Muñiz S, Nombela C, Arroyo J: A yeast strain biosensor to detect cell wall-perturbing agents. J Biotechnol 2008, 133:311-317. 39. Martin H, Rodriguez-Pachon JM, Ruiz C, Nombela C, Molina M: Regulatory mechanisms for modulation of signaling through the cell integrity Slt2- mediated pathway in Saccharomyces cerevisiae. J Biol Chem 2000, 275:1511-1519. 40. Tong AH, Lesage G, Bader GD, Ding H, Xu H, Xin X, Young J, Berriz GF, Brost RL, Chang M, et al: Global mapping of the yeast genetic interaction network. Science 2004, 303:808-813. 41. Szklarczyk D, Franceschini A, Kuhn M, Simonovic M, Roth A, Minguez P, Doerks T, Stark M, Muller J, Bork P, et al: The STRING database in 2011: functional interaction networks of proteins, globally integrated and scored. Nucleic Acids Res 2011, 39:D561-D568. 42. Harrison JC, Zyla TR, Bardes ES, Lew DJ: Stress-specific activation mechanisms for the “cell integrity” MAPK pathway. J Biol Chem 2004, 279:2616-2622. 43. Fiorani P, Reid RJ, Schepis A, Jacquiau HR, Guo H, Thimmaiah P, Benedetti P, Bjornsti MA: The deubiquitinating enzyme Doa4p protects cells from DNA topoisomerase I poisons. J Biol Chem 2004, 279:21271-21281. 44. De Nobel H, Ruiz C, Martin H, Morris W, Brul S, Molina M, Klis FM: Cell wall perturbation in yeast results in dual phosphorylation of the Slt2/Mpk1 MAP kinase and in an Slt2-mediated increase in FKS2-lacZ expression, glucanase resistance and thermotolerance. Microbiology 2000, 146:2121-2132. 45. De Groot PW, Ruiz C, Vazquez de Aldana CR, Duenas E, Cid VJ, del Rey F, Rodriguez-Peña JM, Perez P, Andel A, Caubin J, et al: A genomic approach for the identification and classification of genes involved in cell wall formation and its regulation in Saccharomyces cerevisiae. Comp Funct Genomics 2001, 2:124-142. 46. Kajiwara K, Watanabe R, Pichler H, Ihara K, Murakami S, Riezman H, Funato K: Yeast ARV1 is required for efficient delivery of an early GPI intermediate to the first mannosyltransferase during GPI assembly and controls lipid flow from the endoplasmic reticulum. Mol Biol Cell 2008, 19:2069-2082. 47. Lommel M, Strahl S: Protein O-mannosylation: conserved from bacteria to humans. Glycobiology 2009, 19:816-828. 48. Cullen PJ, Xu-Friedman R, Delrow J, Sprague GF: Genome-wide analysis of the response to protein glycosylation deficiency in yeast. FEMS Yeast Res 2006, 6:1264-1273. 49. Arroyo J, Hutzler J, Bermejo C, Ragni E, Garcia-Cantalejo J, Botias P, Piberger H, Schott A, Sanz AB, Strahl S: Functional and genomic analyzes of blocked protein O-mannosylation in baker’s yeast. Mol Microbiol 2011, 79:1529-1546. 50. Willer T, Valero MC, Tanner W, Cruces J, Strahl S: O-mannosyl glycans: from yeast to novel associations with human disease. Curr Opin Struct Biol 2003, 13:621-630. 51. De la Torre-Ruiz A, Torres J, Arino J, Herrero E: Sit4 is required for proper modulation of the biological functions mediated by Pkc1 and the cell integrity pathway in Saccharomyces cerevisiae. J Biol Chem 2002, 277:33468-33476. 52. Flandez M, Cosano IC, Nombela C, Martin H, Molina M: Reciprocal regulation between Slt2 MAPK and isoforms of Msg5 dual-specificity Page 16 of 17 protein phosphatase modulates the yeast cell integrity pathway. J Biol Chem 2004, 279:11027-11034. 53. Schmelzle T, Helliwell SB, Hall MN: Yeast protein kinases and the RHO1 exchange factor TUS1 are novel components of the cell integrity pathway in yeast. Mol Cell Biol 2002, 22:1329-1339. 54. Lorberg A, Jacoby JJ, Schmitz HP, Heinisch JJ: The PH domain of the yeast GEF Rom2p serves an essential function in vivo. Mol Genet Genomics 2001, 266:505-513. 55. Mapes J, Ota IM: Nbp2 targets the Ptc1-type 2C Ser/Thr phosphatase to the HOG MAPK pathway. EMBO J 2004, 23:302-311. 56. Du Y, Walker L, Novick P, Ferro-Novick S: Ptc1p regulates cortical ER inheritance via Slt2p. EMBO J 2006, 25:4413-4422. 57. Bharucha N, Ma J, Dobry CJ, Lawson SK, Yang Z, Kumar A: Analysis of the yeast kinome reveals a network of regulated protein localization during filamentous growth. Mol Biol Cell 2008, 19:2708-2717. 58. Nakano K, Yamamoto T, Kishimoto T, Noji T, Tanaka K: Protein kinases Fpk1p and Fpk2p are novel regulators of phospholipid asymmetry. Mol Biol Cell 2008, 19:1783-1797. 59. Alberts AS, Bouquin N, Johnston LH, Treisman R: Analysis of RhoA-binding proteins reveals an interaction domain conserved in heterotrimeric G protein beta subunits and the yeast response regulator protein Skn7. J Biol Chem 1998, 273:8616-8622. 60. Lu JM, Deschenes RJ, Fassler JS: Role for the Ran binding protein, Mog1p, in Saccharomyces cerevisiae SLN1-SKN7 signal transduction. Eukaryot Cell 2004, 3:1544-1556. 61. Kelley R, Ideker T: Genome-wide fitness and expression profiling implicate Mga2 in adaptation to hydrogen peroxide. PLoS Genet 2009, 5: e1000488. 62. Lenssen E, Azzouz N, Michel A, Landrieux E, Collart MA: The Ccr4-not complex regulates Skn7 through Srb10 kinase. Eukaryot Cell 2007, 6:2251-2259. 63. Ron D, Walter P: Signal integration in the endoplasmic reticulum unfolded protein response. Nat Rev Mol Cell Biol 2007, 8:519-529. 64. Scrimale T, Didone L, Mesy Bentley KL, Krysan DJ: The unfolded protein response is induced by the cell wall integrity mitogen-activated protein kinase signaling cascade and is required for cell wall integrity in Saccharomyces cerevisiae. Mol Biol Cell 2009, 20:164-175. 65. Babour A, Bicknell AA, Tourtellotte J, Niwa M: A surveillance pathway monitors the fitness of the endoplasmic reticulum to control its inheritance. Cell 2010, 142:256-269. 66. Han S, Lone MA, Schneiter R, Chang A: Orm1 and Orm2 are conserved endoplasmic reticulum membrane proteins regulating lipid homeostasis and protein quality control. Proc Natl Acad Sci USA 2010, 107:5851-5856. 67. Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, Sakaki Y: A comprehensive two-hybrid analysis to explore the yeast protein interactome. Proc Natl Acad Sci USA 2001, 98:4569-4574. 68. Roncero C, Duran A: Effect of Calcofluor white and Congo red on fungal cell wall morphogenesis: in vivo activation of chitin polymerization. J Bacteriol 1985, 163:1180-1185. 69. Dean N: Yeast glycosylation mutants are sensitive to aminoglycosides. Proc Natl Acad Sci USA 1995, 92:1287-1291. 70. Igual JC, Johnson AL, Johnston LH: Coordinated regulation of gene expression by the cell cycle transcription factor Swi4 and the protein kinase C MAP kinase pathway for yeast cell integrity. EMBO J 1996, 15:5001-5013. 71. Kuranda K, Leberre V, Sokol S, Palamarczyk G, Francois J: Investigating the caffeine effects in the yeast Saccharomyces cerevisiae brings new insights into the connection between TOR, PKC and Ras/cAMP signalling pathways. Mol Microbiol 2006, 61:1147-1166. 72. Bandyopadhyay S, Mehta M, Kuo D, Sung MK, Chuang R, Jaehnig EJ, Bodenmiller B, Licon K, Copeland W, Shales M, et al: Rewiring of genetic networks in response to DNA damage. Science 2010, 330:1385-1389. 73. Klis FM, Mol P, Hellingwerf K, Brul S: Dynamics of cell wall structure in Saccharomyces cerevisiae. FEMS Microbiol Rev 2002, 26:239-256. 74. Hector RF, Braun PC, Hart JT, Kamarck ME: The use of flow cytometry to monitor chitin synthesis in regenerating protoplasts of Candida albicans. J Med Vet Mycol 1990, 28:51-57. 75. Lesage G, Shapiro J, Specht CA, Sdicu AM, Menard P, Hussein S, Tong AH, Boone C, Bussey H: An interactional network of genes involved in chitin synthesis in Saccharomyces cerevisiae. BMC Genet 2005, 6:8.