Patterns of nucleosomal organization in the alc regulon of Aspergillus nidulans: Roles of the AlcR transcriptional activator and the CreA global repressor

Molecular Microbiology

Volumn 56, Issue 2, 2005, Pages 535-548

  Mathieu, Martine ^a   Nikolaev, Igor ^a,c   Scazzocchio, Claudio ^a,b   Felenbok, Béatrice ^a  

^a UNIVERSITÉ PARIS SACLAY   (France)

^b INSTITUT UNIVERSITAIRE DE FRANCE   (France)

^c DANISCO A S   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

ALCOHOL DEHYDROGENASE;

ALCA GENE; ALCR GENE; ALDA GENE; ARTICLE; ASPERGILLUS NIDULANS; BINDING SITE; CHROMATIN; CHROMATIN STRUCTURE; CREA GENE; FUNGAL GENE; GENE MUTATION; GENETIC EPISTASIS; NONHUMAN; NUCLEOSOME; PRIORITY JOURNAL; PROMOTER REGION; REGULON; REPRESSOR GENE; TRANSCRIPTION INITIATION;

ASPERGILLUS NIDULANS; DNA-BINDING PROTEINS; FUNGAL PROTEINS; GENE EXPRESSION REGULATION, FUNGAL; GLUCOSE; NUCLEOSOMES; PROMOTER REGIONS (GENETICS); REGULON; REPRESSOR PROTEINS;

ALCA; ASPERGILLUS; EMERICELLA NIDULANS;

EID: 17144374416     PISSN: 0950382X     EISSN: None     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2005.04559.x     Document Type: Article

References (47)

1. Angermayr, M., and Bandlow, W. (2003) Permanent nucleosome exclusion from the Gal4p-inducible yeast GCY1 promoter. J Biol Chem 278: 11026-11031.
2. Arst, H.N.J., and Scazzocchio, C. (1985) Formal genetics and molecular biology of the control of gene expression in Aspergillus nidulans. In Genes Manipulations in Fungi. Bennett J.W., and Lasure L.L. (eds). Orlando, FL: Academic Press, pp. 310-337.
3. Arst, H.N.J., Tollervey, D., Dowzer, C.E.A., and Kelly, J.M. (1990) A inversion truncating the creA gene of Aspergillus nidulans result in carbon catabolite derepression. Mol Microbiol 4: 851-854.
4. Axelrod, J.D., Reagan, M.S., and Majors, J. (1993) GAL4 disrupts a repressing nucleosome during activation of GAL1 transcription in vivo. Genes Dev 7: 857-869.
5. Bailey, C., and Arst, H.N.J. (1975) Carbon catabolite repression in Aspergillus nidulans. Eur J Biochem 51: 573-577.
6. Bash, R., and Lohr, D. (2001) Yeast chromatin structure and regulation of GAL gene expression. Prog Nucleic Acids Res Mol Biol 65: 197-259.
7. Bryant, G.O., and Ptashne, M. (2003) Independent recruitment in vivo by Gal4p of two complexes required for transcription. Mol Cell 11: 1301-1309.
8. Cahuzac, B., Cerdan, R., Felenbok, B., and Guittet, E. (2001) The solution structure of an AlcR-DNA complex sheds light onto unique tight and monomeric DNA binding of a Zn(2)Cys(6) protein. Struct (Camb) 9: 827-836.
9. Cerdan, R., Cahuzac, B., Felenbok, B., and Guittet, E. (2000) NMR solution structure of AlcR(1-60) provides insight in the unusual DNA-binding properties of this zinc binuclear cluster protein. J Mol Biol 295: 729-736.
10. Clutterbuck, A.J. (1994) Linkage map and locus list. Prog Ind Microbiol 29: 791-824.
11. Felenbok, B., Sequeval, D., Mathieu, M., Sibley, S., Gwynne, D.I., and Davies, R.W. (1988) The ethanol regulon in Aspergillus nidulans: characterization and sequence of the positive regulatory gene, alcR. Gene 73: 385-396.
12. Felenbok, B., Flipphi, M., and Nikolaev, I. (2001) Ethanol catabolism in Aspergillus nidulans: a model system for studying gene regulation. Prog Nucleic Acids Res Mol Biol 69: 149-204.
13. Fidel, S., Doonan, J.H., and Morris, N.R. (1988) Aspergillus nidulans contains a single actin gene which has unique intron locations and encodes a γ-actin. Gene 70: 283-293.
14. Fillinger, S., Panozzo, C., Mathieu, M., and Felenbok, B. (1995) The basal level of transcription of the alc genes in the ethanol regulon in Aspergillus nidulans is controlled both by the specific transactivator AlcR and the general carbon catabolite repressor CreA. FEBS Lett 368: 547-550.
15. Flipphi, M., and Felenbok, B. (2004) The onset of carbon catabolite repression and interplay between specific induction and carbon catabolite repression in Aspergillus nidulans. In The Mycota III. Biochemistry and Molecular Biology, 2nd edn. Brambl, R., and Marzluf, G.A. (eds). Berlin-Heidelberg: Springer-Verlag, pp. 403-420.
16. Flipphi, M., Mathieu, M., Cirpus, I., Panozzo, C., and Felenbok, B. (2001) Regulation of the aldehyde dehydrogenase gene (aldA) and its role in the control of the coinducer level necessary for induction of the ethanol utilization pathway in Aspergillus nidulans. J Biol Chem 276: 6950-6958.
17. Flipphi, M., Kocialkowska, J., and Felenbok, B. (2003) Relationships between the ethanol utilization (alc) pathway and unrelated catabolic pathways in Aspergillus nidulans. Eur J Biochem 270: 3555-3564.
18. García, I., Gonzalez, R., Gomez, D., and Scazzocchio, C. (2004) Chromatin rearrangements in the prnD-prnB bidirectional promoter: dependence on transcription factors. Eukaryot Cell 3: 144-156.
19. Gonzalez, R., and Scazzocchio, C. (1997) A rapid method for chromatin structure analysis in the filamentous fungus Aspergillus nidulans. Nucleic Acids Res 25: 3955-3956.
20. Gregory, P.D. (2001) Transcription and chromatin converge: lessons from yeast genetics. Curr Opin Genet Dev 11: 142-147.
21. Kulmburg, P., Mathieu, M., Dowzer, C., Kelly, J., and Felenbok, B. (1993) Specific binding sites in the alcR and alcA promoters of the ethanol regulon for the CREA repressor mediating carbon catabolite repression in Aspergillus nidulans. Mol Microbiol 7: 847-857.
22. Lee, M.S., and Garrard, W.T. (1991) Positive DNA supercoiling generates a chromatin conformation characteristic of highly actives genes. Proc Natl Acad Sci USA 88: 9676-9679.
23. Liu, L.F., and Wang, J.C. (1987) Supercoiling of the DNA template during transcription. Proc Natl Acad Sci USA 84: 7024-7027.
24. Lockington, R.A., Sealy-Lewis, H.M., Scazzocchio, C., and Davies, R.W. (1985) Cloning and characterization of the ethanol utilization regulon in Aspergillus nidulans. Gene 33: 137-149.
25. Lohor, D., and López, J. (1995) GAL4/GAL80 dependent nucleosomal disruption/deposition in the yeast GAL1-10 and Gal80 genes. J Biol Chem 270: 27671-27678.
26. Lomvardas, S., and Thanos, D. (2001) Nucleosome sliding via TBP DNA binding in vivo. Cell 106: 685-696.
27. McAndrew, P.C., Svaren, J., Martin, S.R., Hörz, W., and Goding, C.R. (1998) Requirements for chromatin modulation and transcription activation by the Pho4 acidic activation domain. Mol Cell Biol 18: 1818-5827.
28. Mathieu, M., and Felenbok, B. (1994) The Aspergillus nidulans CREA protein mediates glucose repression of the ethanol regulon at various levels through competition with the ALCR-specific transactivator. EMBO J 13: 4022-4027.
29. Mathieu, M., Fillinger, S., and Felenbok, B. (2000) In vivo studies of upstream regulatory cis-acting elements of the alcR gene encoding the transactivator of the ethanol regulon in Aspergillus nidulans. Mol Microbiol 36: 123-131.
30. Moreira, J.M.A., and Holmberg, S. (1998) Nucleosome structure of the yeast CHA1 promoter: analysis of activation-dependent chromatin remodelling of an RNA-polymerase-II-transcribed gene in TBP and RNA pol II mutants defective in vivo in response to acidic activators. EMBO J 17: 6028-6038.
31. Muro-Pastor, M.I., Gonzalez, R., Strauss, J., Narendja, F., and Scazzocchio, C. (1999) The GATA factor AreA is essential for chromatin remodelling in an eukaryotic bidirectional promoter. EMBO J 18: 1584-1597.
32. Muro-Pastor, M.I., Strauss, J., Ramon, A., and Scazzocchio, C. (2004) A paradoxical mutant GATA factor. Eukaryot Cell 3: 393-405.
33. Nikolaev, I., Cochet, M.F., Lenouvel, F., and Felenbok, B. (1999a) A single amino acid, outside the AlcR zinc binuclear cluster, is involved in DNA binding and transcriptional regulation of the ale genes in Aspergillus nidulans. Mol Microbiol 31: 1115-1124.
34. Nikolaev, I., Lenouvel, F., and Felenbok, B. (1999b) Unique DNA binding specificity of the binuclear zinc AlcR activator of the ethanol utilization pathway in Aspergillus nidulans. J Biol Chem 274: 9795-9802.
35. Nikolaev, I., Cochet, M.F., and Felenbok, B. (2003) Nuclear import of zinc binuclear proteins proceeds through multiple, overlapping transport pathways. Eukaryot Cell 2: 209-221.
36. Panozzo, C., Capuano, V., Fillinger, S., and Felenbok, B. (1997) The zinc binuclear cluster activator AlcR is able to bind to single sites but requires multiple repeated sites for synergistic activation of the alcA gene in Aspergillus nidulans. J Biol Chem 272: 22859-22865.
37. Panozzo, C., Cornillot, E., and Felenbok, B. (1998) The CreA repressor is the sole DNA-binding protein responsible for carbon catabolite repression of the alcA gene in Aspergillus nidulans via its binding to a couple of specific sites. J Biol Chem 273: 6367-6372.
38. Pickett, M., Gwynne, D., Buxton, F., Elliot, R., Davies, R.W., Lockington, R.A., et al. (1987) Cloning and characterization of the aldA gene of Aspergillus nidulans. Gene 51: 217-226.
39. Sambrook, J., Fritsch, E.F., and Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press.
40. Shroff, R.A., Lockington, R.A., and Kelly, J.M. (1996) Analysis of mutations in the creA gene involved in carbon catabolite repression in Aspergillus nidulans. Can J Microbiol 42: 950-959.
41. Shroff, R.A., O'Connor, S.M., Hynes, M.J., Lockington, R.A., and Kelly, J.M. (1997) Null alleles of creA, the regulator of carbon catabolite repression in Aspergillus nidulans. Fungal Genet Biol 22: 28-38.
42. Struhl, K. (1998) Histone acetylation and transcription regulatory mechanisms. Genes Dev 12: 599-606.
43. Svaren, J., and Hörz, W. (1997) Transcription factors vs nucleosomes: regulation of the PHO5 promoter in yeast. Trends Biochem Sci 22: 93-97.
44. Then Bergh, F., Flinn, E.M., Svaren, J., Wright, A.P., and Horz, W. (2000) Comparison of nucleosome remodelling by the yeast transcription factor Pho4 and the glucorticoid receptor. J Biol Chem 275: 9035-90042.
45. Verdone, L., Cesari, F., Denism, C.L., Di Mauro, E., and Caserta, M. (1997) Factors affecting Saccharomyces cerevisiae ADH2 chromatin remodelling and transcription. J Biol Chem 272: 30828-30834.
46. Workman, J.L., and Kingston, R.E. (1998) Alteration of nucleosome structure as a mechanism of transcriptional regulation. Annu Rev Biochem 67: 545-579.
47. Zeilinger, S., Schmoll, M., Pail, M., March, R.L., and Kubicek, C.P. (2003) Nucleosome transactions on the Hypocrea jecorina (Trichoderma reesei) cellulase promoter cbh2 associated with cellulase induction. Mol Genet Genomics 270: 46-55.