Characterization of the transcriptional response to cell wall stress in Saccharomyces cerevisiae

Yeast

Volumn 21, Issue 5, 2004, Pages 413-427

  Boorsma, André ^a   de Nobel, Hans ^b   ter Riet, Bas ^a   Bargmann, Bastiaan ^a   Brul, Stanley ^a   Hellingwerf, Klaas J ^a   Klis, Frans M ^a  

^a UNIVERSITY OF AMSTERDAM   (Netherlands)

^b Genencor International   (Netherlands)

Author keywords

Calcofluor white; Cell wall stress; PKC1; REDUCE; RHO1; RLM1; Trascription regulation; Zymolyase

Indexed keywords

ENZYME; FUNCTIONAL GROUP; MITOGEN ACTIVATED PROTEIN KINASE; PROTEIN KINASE C; REAGENT; REGULATOR PROTEIN; RHO KINASE; RIBOSOME RNA; SACCHAROMYCES CEREVISIAE PROTEIN;

ARTICLE; CELL WALL; CONTROLLED STUDY; CORRELATION ANALYSIS; DNA FLANKING REGION; DOWN REGULATION; ENZYME ACTIVE SITE; GENE CONTROL; GENE EXPRESSION; GENE EXPRESSION PROFILING; GENETIC ALGORITHM; GENETIC TRANSCRIPTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN MOTIF; PUBLICATION; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION; STATISTICAL MODEL; STRESS; UPREGULATION;

BASE SEQUENCE; BENZENESULFONATES; CELL WALL; DNA, FUNGAL; DRUG RESISTANCE, FUNGAL; GENE EXPRESSION; GENES, FUNGAL; GLUCAN 1,3-BETA-GLUCOSIDASE; HYDROLASES; MAP KINASE SIGNALING SYSTEM; PROMOTER REGIONS (GENETICS); SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 1942539985     PISSN: 0749503X     EISSN: None     Source Type: Journal    
DOI: 10.1002/yea.1109     Document Type: Article

References (57)

1. Buehrer BM, Errede B. 1997. Coordination of the mating and cell integrity mitogen-activated protein kinase pathways in Saccharomyces cerevisiae. Mol Cell Biol 17: 6517-6525.
2. Bussemaker HJ, Li H, Siggia ED. 2001. Regulatory element detection using correlation with expression. Nature Genet 27: 167-171.
3. Causton HC, Ren B, Koh SS, et al. 2001. Remodeling of yeast genome expression in response to environmental changes. Mol Biol Cell 12: 323-337.
4. Costanzo MC, Hogan JD, Cusick ME, et al. 2000. The yeast proteome database (YPD) and Caenorhabditis elegans proteome database (WormPD): comprehensive resources for the organization and comparison of model organism protein information. Nucleic Acids Res 28: 73-76.
5. Davenport KR, Sohaskey M, Kamada Y, Levin DE, Gustin MC. 1995. A second osmosensing signal transduction pathway in yeast. Hypotonic shock activates the PKC1 protein kinase-regulated cell integrity pathway. J Biol Chem 270: 30 157-30 161.
6. De Nobel H, Ruiz C, Martin H, et al. 2000. 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 146: 2121-3212.
7. Dielbandhoesing SK, Zhang H, Caro LH, et al. 1998. Specific cell wall proteins confer resistance to nisin upon yeast cells. Appl Environ Microbiol 64: 4047-4052.
8. Dodou E, Treisman R. 1997. The Saccharomyces cerevisiae MADS-box transcription factor Rlm1 is a target for the Mpk1 mitogen-activated protein kinase pathway. Mol Cell Biol 17: 1848-1859.
9. Drgonova J, Drgon T, Tanaka K, et al. 1996. Rho1p, a yeast protein at the interface between cell polarization and morphogenesis. Science 272: 277-279.
10. Escott GM, Adams DJ. 1995. Chitinase activity in human serum and leukocytes. Infect Immun 63: 4770-4773.
11. Ezaki B, Gardner RC, Ezaki Y, Kondo H, Matsumoto H. 1998. Protective roles of two aluminum (Al)-induced genes, HSP150 and SED1 of Saccharomyces cerevisiae, in Al and oxidative stresses. FEMS Microbiol Lett 159: 99-105.
12. +)-ATPase. Mol Cell Biol 15: 4103-4114.
13. Gasch AP, Spellman PT, Kao CM, et al. 2000. Genomic expression programs in the response of yeast cells to environmental changes. Mol Biol Cell 11: 4241-4257.
14. Hahn JS, Thiele DJ. 2002. Regulation of the Saccharomyces cerevisiae Slt2 kinase pathway by the stress-inducible Sdp1 dual specificity phosphatase. J Biol Chem 277: 21 278-21 284.
15. Hohmann S. 2002. Osmotic stress signalling and osmoadaptation in yeasts. Microbiol Mol Biol Rev 66: 300-372.
16. Hughes TR, Marton MJ, Jones AR, et al. 2000. Functional discovery via a compendium of expression profiles. Cell 102: 109-126.
17. Jung US, Levin DE. 1999. Genome-wide analysis of gene expression regulated by the yeast cell wall integrity signalling pathway. Mol Microbiol 34: 1049-1057.
18. Kamada Y, Jung US, Piotrowski J, Levin DE. 1995. The protein kinase C-activated MAP kinase pathway of Saccharomyces cerevisiae mediates a novel aspect of the heat shock response. Genes Dev 9: 1559-1571.
19. Kapteyn JC, Van Den Ende H, Klis FM. 1999. The contribution of cell wall proteins to the organization of the yeast cell wall. Biochim Biophys Acta 1426: 373-383.
20. Ketela T, Green R, Bussey H. 1999. Saccharomyces cerevisiae Mid2p is a potential cell wall stress sensor and upstream activator of the PKC1-MPK1 cell integrity pathway. J Bacteriol 181: 3330-3340.
21. Klis FM, Mol P, Hellingwerf K, Brul S. 2002. Dynamics of cell wall structure in Saccharomyces cerevisiae. FEMS Microbiol Rev 26: 239-256.
22. Koerkamp MG, Rep M, Bussemaker HJ, et al. 2002. Dissection of transient oxidative stress response in Saccharomyces cerevisiae by using DNA microarrays. Mol Biol Cell 13: 2783-2794.
23. Lagorce A, Hauser NC, Labourdette D, et al. 2003. Genome-wide analysis of the response to cell wall mutations in the yeast Saccharomyces cerevisiae. J Biol Chem. 278: 20 345-20 357.
24. Lagorce A, Le Berre-Anton V, Aguilar-Uscanga B. 2002. Involvement of GFA1, which encodes glutamine-fructose-6-phosphate amidotransferase, in the activation of the chitin synthesis pathway in response to cell-wall defects in Saccharomyces cerevisiae. Eur J Biochem 269: 1697-1707.
25. Lamb CJ, Lawton MA, Dron M, Dixon RA. 1989. Signals and transduction mechanisms for activation of plant defenses against microbial attack. Cell 56: 215-224.
26. Li Y, Moir RD, Sethy-Coraci IK, Warner JR, Willis IM. 2000. Repression of ribosome and tRNA synthesis in secretion-defective cells is signaled by a novel branch of the cell integrity pathway. Mol Cell Biol 20: 3843-3851.
27. Lorito M, Woo SL, Garcia I. 1998. Genes from mycoparasitic fungi as a source for improving plant resistance to fungal pathogens. Proc Natl Acad Sci USA 95: 7860-7865.
28. Marchler G, Schuller C, Adam G, Ruis H. 1993. A Saccharomyces cerevisiae UAS element controlled by protein kinase A activates transcription in response to a variety of stress conditions. EMBO J 12: 1997-2003.
29. Martinez-Pastor MT, Marchler G, Schuller C. 1996. The Saccharomyces cerevisiae zinc finger proteins Msn2p and Msn4p are required for transcriptional induction through the stress response element (STRE). EMBO J 15: 2227-2235.
30. Mewes HW, Frishman D, Güldener U. 2002. MIPS: a database for genomes and protein sequences (2002). Nucleic Acids Res 30: 31-34.
31. Nonaka H, Tanaka K, Hirano H, et al. 1995. A downstream target of RHO1 small GTP-binding protein is PKC1, a homolog of protein kinase C, which leads to activation of the MAP kinase cascade in Saccharomyces cerevisiae. EMBO J 14: 5931-5938.
32. Overdijk B, Van Steijn GJ, Odds FC. 1996. Chitinase levels in guinea pig blood are increased after systemic infection with Aspergillus fumigatus. Glycobiology 6: 627-634.
33. Pavlidis P, Lewis DP, Noble WS. 2002. Exploring gene expression data with class scores. Pac Symp Biocomput 474-485.
34. Popolo L, Gilardelli D, Bonfante P, Vai M. 1997. Increase in chitin as an essential response to defects in assembly of cell wall polymers in the ggp1delta mutant of Saccharomyces cerevisiae. J Bacteriol 179: 463-469.
35. Rep M, Krantz M, Thevelein JM, Hohmann S. 2000. The transcriptional response of Saccharomyces cerevisiae to osmotic shock. Hot1p and Msn2p/Msn4p are required for the induction of subsets of high osmolarity glycerol pathway-dependent genes. J Biol Chem 275: 8290-8300.
36. Roberts CJ, Nelson B, Marton MJ. 2000. Signalling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles. Science 287: 873-880.
37. Robinson MD, Grigull J, Mohammad N, Hughes TR. 2002. FunSpec: a web-based cluster interpreter for yeast. BMC Bioinformat 3: 35.
38. Roemer T, Paravicini G, Payton MA, Bussey H. 1994. Characterization of the yeast (1-6)-β-glucan biosynthetic components, Kre6p and Skn1p, and genetic interactions between the PKC1 pathway and extracellular matrix assembly. J Cell Biol 127: 567-579.
39. Roncero C, Duran A. 1985. Effect of Calcofluor white and Congo red on fungal cell wall morphogenesis: in vivo activation of chitin polymerization. J Bacteriol 163: 1180-1185.
40. Roven C, Bussemaker HJ. 2003. REDUCE: an online tool for inferring cis-regulary elements and transcriptional module activities from microarray data. Nucleic Acid Res 31: 3487-3490.
41. Schmidt A, Bickle M, Beck T, Hall MN. 1997. The yeast phosphatidylinositol kinase homolog TOR2 activates RHO1 and RHO2 via the exchange factor ROM2. Cell 88: 531-542.
42. Smith A, Ward MP, Garrett S. 1998. Yeast PKA represses Msn2p/Msn4p-dependent gene expression to regulate growth, stress response and glycogen accumulation. EMBO J 17: 3556-3564.
43. Smits GJ, Kapteyn JC, van den Ende H, Klis FM. 1999. Cell wall dynamics in yeast. Curr Opin Microbiol 2: 348-352.
44. Sudarsanam P, Pilpel Y, Church GM. 2002. Genome-wide co-occurrence of promoter elements reveals a cis-regulatory cassette of rRNA transcription motifs in Saccharomyces cerevisiae. Genome Res 12: 1723-1731.
45. Terashima H, Yabuki N, Arisawa M, Hamada K, Kitada K. 2000. Upregulation of genes encoding glycosylphosphatidylinositol (GPI)-attached proteins in response to cell wall damage caused by disruption of FKS1 in Saccharomyces cerevisiae. Mol Gen Genet 264: 64-74.
46. Tjoelker LW, Gosting L, Frey S, et al. 2000. Structural and functional definition of the human chitinase chitin-binding domain. J Biol Chem 275: 514-520.
47. Toh-e A, Yasunaga, S, Nisogi H, et al. 1993. Three yeast genes, PIR1, PIR2 and PIR3, containing internal tandem repeats, are related to each other, and PIR1 and PIR2 are required for tolerance to heat shock. Yeast 9: 481-494.
48. Toone WM, Jones N. 1998. Stress-activated signalling pathways in yeast. Genes Cells 3: 485-498.
49. Watanabe M, Chen CY, Levin DE. 1994. Saccharomyces cerevisiae PKC1 encodes a protein kinase C (PKC) homolog with a substrate specificity similar to that of mammalian PKC. J Biol Chem 269: 16 829-16 836.
50. Watanabe Y, Irie K, Matsumoto K. 1995. Yeast RLM1 encodes a serum response factor-like protein that may function downstream of the Mpk1 (Slt2) mitogen-activated protein kinase pathway. Mol Cell Biol 15: 5740-5749.
51. Watanabe Y, Takaesu G, Hagiwara M, Irie K, Matsumoto K. 1997. Characterization of a serum response factor-like protein in Saccharomyces cerevisiae, Rlm1, which has transcriptional activity regulated by the Mpk1 (Slt2) mitogen-activated protein kinase pathway. Mol Cell Biol 17: 2615-2623.
52. Weng S, Dong Q, Balakrishnan R, et al. 2003. Saccharomyces Genome Database (SGD) provides biochemical and structural information for budding yeast proteins. Nucleic Acids Res 31: 216-218.
53. Winkler A, Arkind C, Mattison CP, et al. 2002. Heat stress activates the yeast high-osmolarity glycerol mitogen-activated protein kinase pathway, and protein tyrosine phosphatases are essential under heat stress. Eukaryot Cell 1: 163-173.
54. Wojda I, Alonso-Monge R, Bebelman JP, Mager WH, Siderius M. 2003. Response to high osmotic conditions and elevated temperature in Saccharomyces cerevisiae is controlled by intracellular glycerol and involves coordinate activity of MAP kinase pathways. Microbiology 149: 1193-1204.
55. Yoshimoto H, Saltsman K, Gasch AP, et al. 2002. Genome-wide analysis of gene expression regulated by the calcineurin/Crz1p signalling pathway in Saccharomyces cerevisiae. J Biol Chem 277: 31 079-31 088.
56. Yun DJ, Zhao Y, Pardo JM. 1997. Stress proteins on the yeast cell surface determine resistance to osmotin, a plant antifungal protein. Proc Natl Acad Sci USA 94: 7082-7087.
57. Zarzov P, Mazzoni C, Mann C. 1996. The SLT2 (MPK1) MAP kinase is activated during periods of polarized cell growth in yeast. EMBO J 15: 83-91.