Whole-Genome Analysis of Two-Component Signal Transduction Genes in Fungal Pathogens

Eukaryotic Cell

Volumn 2, Issue 6, 2003, Pages 1151-1161

  Catlett, Natalie L ^a,c   Yoder, Olen C ^a,d   Turgeon, B Gillian ^a,b  

^a SYNGENTA BIOTECHNOLOGY INC   (United States)

^b Department of Obstetrics Gynecology   (United States)

^c UNIVERSITY OF CALIFORNIA   (United States)

^d DIVERSA CORPORATION   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN HISTIDINE KINASE; PROTEIN KINASE; PROTEIN-HISTIDINE KINASE; REPRESSOR PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; ASCOMYCETES; BIOLOGICAL MODEL; BIOLOGY; CHEMISTRY; CLASSIFICATION; COMPARATIVE STUDY; CONSENSUS SEQUENCE; ENZYMOLOGY; FACTUAL DATABASE; FUNGAL GENE; GENETICS; GENOME; METABOLISM; MOLECULAR EVOLUTION; MOLECULAR GENETICS; NEUROSPORA CRASSA; NUCLEOTIDE SEQUENCE; PATHOGENICITY; PHYLOGENY; PROTEIN TERTIARY STRUCTURE; SEQUENCE HOMOLOGY; SIGNAL TRANSDUCTION; VIRULENCE;

AMINO ACID SEQUENCE; ASCOMYCOTA; BASE SEQUENCE; COMPUTATIONAL BIOLOGY; CONSENSUS SEQUENCE; CONSERVED SEQUENCE; DATABASES, FACTUAL; EVOLUTION, MOLECULAR; GENES, FUNGAL; GENOME, FUNGAL; MODELS, BIOLOGICAL; MOLECULAR SEQUENCE DATA; NEUROSPORA CRASSA; PHYLOGENY; PROTEIN KINASES; PROTEIN STRUCTURE, TERTIARY; REPRESSOR PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; SIGNAL TRANSDUCTION; VIRULENCE;

ASCOMYCOTA; BIPOLARIS; BOTRYOTINIA; BOTRYOTINIA FUCKELIANA; BOTRYTIS; CANDIDA; CANDIDA ALBICANS; COCHLIOBOLUS; COCHLIOBOLUS HETEROSTROPHUS; FUSARIUM; GIBBERELLA; GIBBERELLA MONILIFORMIS; MONILIFORMIS; NEUROSPORA; NEUROSPORA CRASSA; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE; SCHIZOSACCHAROMYCES; SCHIZOSACCHAROMYCES POMBE;

EID: 0347694805     PISSN: 15359778     EISSN: None     Source Type: Journal    
DOI: 10.1128/EC.2.6.1151-1161.2003     Document Type: Article

References (62)

1. Alex, L. A., K. A. Borkovich, and M. I. Simon. 1996. Hyphal development in Neurospora crassa: involvement of a two-component histidine kinase. Proc. Natl. Acad. Sci. USA 93:3416-3421.
2. Alex, L. A., C. Korch, C. P. Selitrennikoff, and M. I. Simon. 1998. COS1, a two-component histidine kinase that is involved in hyphal development in the opportunistic pathogen Candida albicans. Proc. Natl. Acad. Sci. USA 95:7069-7073.
3. Altschul, S. F., W. Gish, W. Miller, E. W. Myers, and D. J. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215:403-410.
4. Anantharaman, V., E. V. Koonin, and L. Aravind. 2001. Regulatory potential, phyletic distribution and evolution of ancient, intracellular small-molecule-binding domains. J. Mol. Biol. 307:1271-1292.
5. Aoyama, K., H. Aiba, and T. Mizuno. 2001. Genetic analysis of the His-to-Asp phosphorelay implicated in mitotic cell cycle control: involvement of histidine-kinase genes of Schizosaccharomyces pombe. Biosci. Biotechnol. Biochem. 65:2347-2352.
6. Aoyama, K., Y. Mitsubayashi, H. Aiba, and T. Mizuno. 2000. Spy1, a histidine-containing phosphotransfer signaling protein, regulates the fission yeast cell cycle through the Mcs4 response regulator. J. Bacteriol. 182:4868-4874.
7. Appleby, J. L., J. S. Parkinson, and R. B. Bourret. 1996. Signal transduction via the multi-step phosphorelay: not necessarily a road less traveled. Cell 86:845-848.
8. Appleyard, M. V. C. L., W. L. McPheat, and M. J. Stark. 2000. A novel 'two-component' protein containing histidine kinase and response regulator domains required for sporulation in Aspergillus nidulans. Curr. Genet. 37: 364-372.
9. Aravind, L., and C. P. Ponting. 1999. The cytoplasmic helical linker domain of receptor histidine kinase and methyl-accepting proteins is common to many prokaryotic signalling proteins. FEMS Microbiol. Lett. 176:111-116.
10. Aravind, L., and C. P. Ponting. 1997. The GAF domain: an evolutionary link between diverse phototransducing proteins. Trends Biochem. Sci. 22:458-459.
11. Berbee, M. L. 2001. The phylogeny of plant and animal pathogens in the Ascomycota. Physiol. Mol. Plant Pathol. 59:165-187.
12. Bhoo, S. H., S. J. Davis, J. Walker, B. Karniol, and R. D. Vierstra. 2001. Bacteriophytochromes are photochromic histidine kinases using a biliverdin chromophore. Nature 414:776-779.
13. Buck, V., J. Quinn, T. Soto Pino, H. Martin, J. Saldanha, K. Makino, B. A. Morgan, and J. B. Millar. 2001. Peroxide sensors for the fission yeast stress-activated mitogen-activated protein kinase pathway. Mol. Biol. Cell 12:407-419.
14. Calera, J. A., and R. Calderone. 1999. Flocculation of hyphae is associated with a deletion in the putative CaHK1 two-component histidine kinase gene from Candida albicans. Microbiology 145:1431-1442.
15. Calera, J. A., G. H. Choi, and R. A. Calderone. 1998. Identification of a putative histidine kinase two-component phosphorelay gene (CaHK1) in Candida albicans. Yeast 14:665-674.
16. Chang, C., and R. C. Stewart. 1998. The two-component system. Regulation of diverse signaling pathways in prokaryotes and eukaryotes. Plant Physiol. 117:723-731.
17. Cui, W., R. E. Beever, S. L. Parkes, P. L. Weeds, and M. D. Templeton. 2002. An osmosensing histidine kinase mediates dicarboximide fungicide resistance in Botryotinia fuckeliana (Botrytis cinerea). Fungal Genet. Biol. 36: 187-198.
18. Davis, S. J., A. V. Vener, and R. D. Vierstra. 1999. Bacteriophytochromes: phytochrome-like photoreceptors from nonphotosynthetic eubacteria. Science 286:2517-2520.
19. Desjardins, A. E. 2003. Gibberella from A (venaceae) to Z (eae). Annu. Rev. Phytopathol. 41:177-198
20. Fankhauser, C. 2001. The phytochromes, a family of red/far-red absorbing photoreceptors. J. Biol. Chem. 276:11453-11456.
21. Fujimura, M., N. Ochiai, M. Oshima, T. Motoyama, A. Ichiishi, R. Usami, K. Horikoshi, and I. Yamaguchi. 2003. Putative homologs of SSK22 MAPKK kinase and PBS2 MAPK kinase of Saccharomyces cerevisiae encoded by os-4 and os-5 genes for osmotic sensitivity and fungicide resistance in Neurospora crassa. Biosci. Biotechnol. Biochem. 67:186-191.
22. Furukawa, K., Y. Katsuno, T. Urao, T. Yabe, T. Yamada-Okabe, H. Yamada-Okabe, Y. Yamagata, K. Abe, and T. Nakajima. 2002. Isolation and functional analysis of a gene, tcsB, encoding a transmembrane hybrid-type histidine kinase from Aspergillus nidulans. Appl. Environ. Microbiol. 68:5304-5310.
23. Galagan, J. E., S. E. Calvo, K. A. Borkovich, E. U. Selker, N. D. Read, D. Jaffe, W. FitzHugh, L. J. Ma, S. Smirnov, S. Purcell, B. Rehman, T. Elkins, R. Engels, S. Wang, C. B. Nielsen, J. Butler, M. Endrizzi, D. Qui, P. Ianaklev, D. Bell-Pedersen, M. A. Nelson, M. Werner-Washburne, C. P. Selitrennikoff, J. A. Kinsey, E. L. Braun, A. Zelter, U. Schulte, G. O. Kothe, G. Jedd, W. Mewes, C. Staben, E. Marcotte, D. Greenberg, A. Roy, K. Foley, J. Naylor, N. Stange-Thomann, R. Barrett, S. Gnerre, M. Kamal, M. Kamvysselis, E. Mauceli, C. Bielke, S. Rudd, D. Frishman, S. Krystofova, C. Rasmussen, R. L. Metzenberg, D. D. Perkins, S. Kroken, C. Cogoni, G. Macino, D. Catcheside, W. Li, R. J. Pratt, S. A. Osmani, C. P. DeSouza, L. Glass, M. J. Orbach, J. A. Berglund, R. Voelker, O. Yarden, M. Plamann, S. Seiler, J. Dunlap, A. Radford, R. Aramayo, D. O. Natvig, L. A. Alex, G. Mannhaupt, D. J. Ebbole, M. Freitag, I. Paulsen, M. S. Sachs, E. S. Lander, C. Nusbaum, and B. Birren. 2003. The genome sequence of the filamentous fungus Neurospora crassa. Nature 422:859-868.
24. Grebe, T. W., and J. B. Stock. 1999. The histidine protein kinase superfamily. Adv. Microb. Physiol. 41:139-227.
25. Gressel, J., and W. Rau. 1983. Photocontrol of fungal development, p. 603-639. In W. Shropshire, Jr., and H. Mohr (ed.), Photomorphogenesis. Encyclopedia of plant physiology, vol. 16. Springer-Verlag, Berlin, Germany.
26. Gurr, S. J., S. E. Unkles, and J. R. Kinghorn. 1987. The structure and organization of nuclear genes of filamentous fungi, p. 93-139. In J. R. Kinghorn (ed.), Genetic structure in eukaryotic microbes. IRL Press, Oxford, England.
27. Krogh, A., B. Larsson, G. von Heijne, and E. L. Sonnhammer. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305:567-580.
28. 27a. Kroken, S., N. L. Glass, J. W. Taylor, O. C. Yoder, and B. Gillian Turgeon. Phylogenomic analysis of type I polyketide synthase genes in pathogenic and saprobic ascomycetes. Proc. Natl. Acad. Sci. USA, in press.
29. Levit, M. N., Y. Liu, and J. B. Stock. 1998. Stimulus response coupling in bacterial chemotaxis: receptor dimers in signalling arrays. Mol. Microbiol. 30:459-466.
30. Li, S., A. Ault, C. L. Malone, D. Raitt, S. Dean, L. H. Johnston, R. J. Deschenes, and J. S. Fassler. 1998. The yeast histidine protein kinase, Sln1p, mediates phosphotransfer to two response regulators, Ssk1p and Skn7p. EMBO J. 17:6952-6962.
31. Linden, H., P. Ballario, and G. Macino. 1997. Blue light regulation in Neurospora crassa. Fungal Genet. Biol. 22:141-150.
32. Maeda, T., S. M. Wurgler-Murphy, and H. Saito. 1994. A two-component system that regulates an osmosensing MAP kinase cascade in yeast. Nature 369:242-245.
33. Maheshwari, R. 1999. Microconidia of Neurospora crassa. Fungal Genet. Biol. 26:1-18.
34. Miller, T. K., S. Renault, and C. P. Selitrennikoff. 2002. Molecular dissection of alleles of the osmotic-1 locus of Neurospora crassa. Fungal Genet. Biol. 35:147-155.
35. Miyata, S., T. Urao, K. Yamaguchi-Shinozaki, and K. Shinozaki. 1998. Characterization of genes for two-component phosphorelay mediators with a single HPt domain in Arabidopsis thaliana. FEBS Lett. 437:11-14.
36. Mizuno, T. 1997. Compilation of all genes encoding two-component phosphotransfer signal transducers in the genome of Escherichia coli. DNA Res. 4:161-168.
37. Mooney, J. L., and L. N. Yager. 1990. Light is required for conidiation in Aspergillus nidulans. Genes Dev. 4:1473-1482.
38. Nagahashi, S., T. Mio, N. Ono, T. Yamada-Okabe, M. Arisawa, H. Bussey, and H. Yamada-Okabe. 1998. Isolation of CaSLN1 and CaNIK1, the genes for osmosensing histidine kinase homologues, from the pathogenic fungus Candida albicans. Microbiology 144:425-432.
39. Nguyen, A. N., A. Lee, W. Place, and K. Shiozaki. 2000. Multistep phosphorelay proteins transmit oxidative stress signals to the fission yeast stress-activated protein kinase. Mol. Biol. Cell 11:1169-1181.
40. Notredame, C., D. G. Higgins, and J. Heringa. 2000. T-Coffee: a novel method for fast and accurate multiple sequence alignment. J. Mol. Biol. 302:205-217.
41. Ochiai, N., M. Fujimura, T. Motoyama, A. Ichiishi, R. Usami, K. Horikoshi, and I. Yamaguchi. 2001. Characterization of mutations in the two-component histidine kinase gene that confer fludioxonil resistance and osmotic sensitivity in the os-1 mutants of Neurospora crassa. Pest Manag. Sci. 57: 437-442.
42. Ponting, C. P., and L. Aravind. 1997. PAS: a multifunctional domain family comes to light. Curr. Biol. 7:R674-R677.
43. Posas, F., and H. Saito. 1998. Activation of the yeast SSK2 MAP kinase kinase kinase by the SSK1 two-component response regulator. EMBO J. 17:1385-1394.
44. Posas, F., S. M. Wurgler-Murphy, T. Maeda, E. A. Witten, T. C. Thai, and H. Saito. 1996. Yeast HOG1 MAP kinase cascade is regulated by a multistep phosphorelay mechanism in the SLN1-YPD1-SSK1 "two-component" osmosensor. Cell 86:865-875.
45. Pott, G. B., T. K. Miller, J. A. Bartlett, J. S. Palas, and C. P. Selitrennikoff. 2000. The isolation of FOS-1, a gene encoding a putative two-component histidine kinase from Aspergillus fumigatus. Fungal Genet. Biol. 31:55-67.
46. Prins, T. W., P. Tudzynski, A. von Tiedemann, B. Tudzynski, A. ten Have, M. Hansen, K. Tenberge, and J. A. L. van Kan. 2000. Infection strategies of Botrytis cinerea and related necrotrophic pathogens, p. 33-64. In J. W. Kronstad (ed.), Fungal pathology. Kluwer, Dordrecht, The Netherlands.
47. Quail, P. H. 1997. The phytochromes: a biochemical mechanism of signaling in sight? Bioessays 19:571-579.
48. Santos, J. L., and K. Shiozaki. 2001. Fungal histidine kinases. Sci. STKE 2001:RE1.
49. Schaller, G. E., D. E. Mathews, M. Gribskov, and J. C. Walker. 2002. Two-component signaling elements and histidyl-aspartyl phosphorelays. In C. R. Somerville and E. M. Meyerwitz (ed.), The Arabidopsis book. American Society of Plant Biologists. [Online.] doi/10.1199/tab.0086.
50. Schoch, C. L., J. R. Aist, O. C. Yoder, and B. G. Turgeon. 2003. A complete inventory of fungal kinesins in representative filamentous ascomycetes. Fungal Genet. Biol. 39:1-15.
51. Schumacher, M. M., C. S. Enderlin, and C. P. Selitrennikoff. 1997. The osmotic-1 locus of Neurospora crassa encodes a putative histidine kinase similar to osmosensors of bacteria and yeast. Curr. Microbiol. 34:340-347.
52. Selker, E. U. 1990. Premeiotic instability of repeated sequences in Neurospora crassa. Annu. Rev. Genet. 24:579-613.
53. Springer, M. L. 1993. Genetic control of fungal differentiation: the three sporulation pathways of Neurospora crassa. Bioessays 15:365-374.
54. Srikantha, T., L. Tsai, K. Daniels, L. Enger, K. Highley, and D. R. Soll. 1998. The two-component hybrid kinase regulator CaNIK1 of Candida albicans. Microbiology 144:2715-2729.
55. Taylor, B. L., and I. B. Zhulin. 1999. PAS domains: internal sensors of oxygen, redox potential, and light. Microbiol. Mol. Biol. Rev. 63:479-506.
56. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. ClustalW: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
57. Vidan, S., and A. P. Mitchell. 1997. Stimulation of yeast meiotic gene expression by the glucose-repressible protein kinase Rim15p. Mol. Cell. Biol. 17:2688-2697.
58. West, A. H., and A. M. Stock. 2001. Histidine kinases and response regulator proteins in two-component signaling systems. Trends Biochem. Sci. 26:369-376.
59. Wolanin, P. M., P. A. Thomason, and J. B. Stock. 2002. Histidine protein kinases: key signal transducers outside the animal kingdom. Genome Biol. 3:REVIEWS3013.
60. Yamada-Okabe, T., T. Mio, N. Ono, Y. Kashima, M. Matsui, M. Arisawa, and H. Yamada-Okabe. 1999. Roles of three histidine kinase genes in hyphal development and virulence of the pathogenic fungus Candida albicans. J. Bacteriol. 181:7243-7247.
61. Yeh, K. C., and J. C. Lagarias. 1998. Eukaryotic phytochromes: light-regulated serine/threonine protein kinases with histidine kinase ancestry. Proc. Natl. Acad. Sci. USA 95:13976-13981.
62. Zhang, Y., R. Lamm, C. Pillonel, S. Lam, and J. R. Xu. 2002. Osmoregulation and fungicide resistance: the Neurospora crassa os-2 gene encodes a HOG1 mitogen-activated protein kinase homologue. Appl. Environ. Microbiol. 68:532-538.