Abstract
The beta-lactam antibiotic penicillin is produced as a secondary metabolite by some filamentous fungi. In this study, the molecular regulation of the Aspergillus (Emericella) nidulans penicillin biosynthesis genes acvA (pcbAB) and ipnA (pcbC) was analyzed. acvA and ipnA are divergently oriented and separated by an intergenic region of 872 bp. Translational fusions of acvA and ipnA with the two Escherichia coli reporter genes lacZ and uidA enabled us to measure the regulation of both genes simultaneously. A moving-window analysis of the 872-bp intergenic region indicated that the divergently oriented promoters are, at least in part, overlapping and share common regulatory elements. Removal of nucleotides -353 to -432 upstream of the acvA gene led to a 10-fold increase of acvA-uidA expression and simultaneously to a reduction of ipnA-lacZ expression to about 30%. Band shift assays and methyl interference analysis using partially purified protein extracts revealed that a CCAAT-containing DNA element within this region was specifically bound by a protein (complex), which we designated PENR1, for penicillin regulator. Deletion of 4 bp within the identified protein binding site caused the same contrary effects on acvA and ipnA expression as observed for all of the deletion clones which lacked nucleotides -353 to -432. The PENR1 binding site thus represents a major cis-acting DNA element. The intergenic regions of the corresponding genes of the beta-lactam-producing fungi Penicillium chrysogenum and Acremonium chrysogenum also diluted the complex formed between the A. nidulans probe and PENR1 in vitro, suggesting that these beta-lactam biosynthesis genes are regulated by analogous DNA elements and proteins.
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- Aharonowitz Y., Cohen G., Martin J. F. Penicillin and cephalosporin biosynthetic genes: structure, organization, regulation, and evolution. Annu Rev Microbiol. 1992;46:461–495. doi: 10.1146/annurev.mi.46.100192.002333. [DOI] [PubMed] [Google Scholar]
- Ansari A. Z., Bradner J. E., O'Halloran T. V. DNA-bend modulation in a repressor-to-activator switching mechanism. Nature. 1995 Mar 23;374(6520):371–375. doi: 10.1038/374370a0. [DOI] [PubMed] [Google Scholar]
- Aramayo R., Timberlake W. E. The Aspergillus nidulans yA gene is regulated by abaA. EMBO J. 1993 May;12(5):2039–2048. doi: 10.1002/j.1460-2075.1993.tb05853.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ballance D. J., Turner G. Development of a high-frequency transforming vector for Aspergillus nidulans. Gene. 1985;36(3):321–331. doi: 10.1016/0378-1119(85)90187-8. [DOI] [PubMed] [Google Scholar]
- Barberis A., Superti-Furga G., Busslinger M. Mutually exclusive interaction of the CCAAT-binding factor and of a displacement protein with overlapping sequences of a histone gene promoter. Cell. 1987 Jul 31;50(3):347–359. doi: 10.1016/0092-8674(87)90489-2. [DOI] [PubMed] [Google Scholar]
- Bradford M. M. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem. 1976 May 7;72:248–254. doi: 10.1016/0003-2697(76)90527-3. [DOI] [PubMed] [Google Scholar]
- Brakhage A. A., Browne P., Turner G. Analysis of the regulation of penicillin biosynthesis in Aspergillus nidulans by targeted disruption of the acvA gene. Mol Gen Genet. 1994 Jan;242(1):57–64. doi: 10.1007/BF00277348. [DOI] [PubMed] [Google Scholar]
- Brakhage A. A., Browne P., Turner G. Regulation of Aspergillus nidulans penicillin biosynthesis and penicillin biosynthesis genes acvA and ipnA by glucose. J Bacteriol. 1992 Jun;174(11):3789–3799. doi: 10.1128/jb.174.11.3789-3799.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brakhage A. A., Turner G. L-lysine repression of penicillin biosynthesis and the expression of penicillin biosynthesis genes acvA and ipnA in Aspergillus nidulans. FEMS Microbiol Lett. 1992 Nov 1;77(1-3):123–127. doi: 10.1016/0378-1097(92)90142-b. [DOI] [PubMed] [Google Scholar]
- Brakhage A. A., Van den Brulle J. Use of reporter genes to identify recessive trans-acting mutations specifically involved in the regulation of Aspergillus nidulans penicillin biosynthesis genes. J Bacteriol. 1995 May;177(10):2781–2788. doi: 10.1128/jb.177.10.2781-2788.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Brunelle A., Schleif R. F. Missing contact probing of DNA-protein interactions. Proc Natl Acad Sci U S A. 1987 Oct;84(19):6673–6676. doi: 10.1073/pnas.84.19.6673. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chen H., Kinsey J. A. Purification of a heteromeric CCAAT binding protein from Neurospora crassa. Mol Gen Genet. 1995 Nov 27;249(3):301–308. doi: 10.1007/BF00290531. [DOI] [PubMed] [Google Scholar]
- Chodosh L. A., Olesen J., Hahn S., Baldwin A. S., Guarente L., Sharp P. A. A yeast and a human CCAAT-binding protein have heterologous subunits that are functionally interchangeable. Cell. 1988 Apr 8;53(1):25–35. doi: 10.1016/0092-8674(88)90484-9. [DOI] [PubMed] [Google Scholar]
- Chu Y. W., Renno D., Saunders G. Detection of a protein which binds specifically to the upstream region of the pcbAB gene in Penicillium chrysogenum. Curr Genet. 1995 Jul;28(2):184–189. doi: 10.1007/BF00315786. [DOI] [PubMed] [Google Scholar]
- Espeso E. A., Peñalva M. A. Carbon catabolite repression can account for the temporal pattern of expression of a penicillin biosynthetic gene in Aspergillus nidulans. Mol Microbiol. 1992 Jun;6(11):1457–1465. doi: 10.1111/j.1365-2958.1992.tb00866.x. [DOI] [PubMed] [Google Scholar]
- Espeso E. A., Tilburn J., Arst H. N., Jr, Peñalva M. A. pH regulation is a major determinant in expression of a fungal penicillin biosynthetic gene. EMBO J. 1993 Oct;12(10):3947–3956. doi: 10.1002/j.1460-2075.1993.tb06072.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Fantes P. A., Roberts C. F. Beta-galactosidase activity and lactose utilization in Aspergillus nidulans. J Gen Microbiol. 1973 Aug;77(2):417–486. doi: 10.1099/00221287-77-2-417. [DOI] [PubMed] [Google Scholar]
- Feng B., Friedlin E., Marzluf G. A. Nuclear DNA-binding proteins which recognize the intergenic control region of penicillin biosynthetic genes. Curr Genet. 1995 Mar;27(4):351–358. doi: 10.1007/BF00352104. [DOI] [PubMed] [Google Scholar]
- Haas H., Marzluf G. A. NRE, the major nitrogen regulatory protein of Penicillium chrysogenum, binds specifically to elements in the intergenic promoter regions of nitrate assimilation and penicillin biosynthetic gene clusters. Curr Genet. 1995 Jul;28(2):177–183. doi: 10.1007/BF00315785. [DOI] [PubMed] [Google Scholar]
- Hahn S., Guarente L. Yeast HAP2 and HAP3: transcriptional activators in a heteromeric complex. Science. 1988 Apr 15;240(4850):317–321. doi: 10.1126/science.2832951. [DOI] [PubMed] [Google Scholar]
- Higuchi R., Krummel B., Saiki R. K. A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions. Nucleic Acids Res. 1988 Aug 11;16(15):7351–7367. doi: 10.1093/nar/16.15.7351. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Johnson P. F., McKnight S. L. Eukaryotic transcriptional regulatory proteins. Annu Rev Biochem. 1989;58:799–839. doi: 10.1146/annurev.bi.58.070189.004055. [DOI] [PubMed] [Google Scholar]
- Kalnins A., Otto K., Rüther U., Müller-Hill B. Sequence of the lacZ gene of Escherichia coli. EMBO J. 1983;2(4):593–597. doi: 10.1002/j.1460-2075.1983.tb01468.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Litzka O., Bergh K. T., Brakhage A. A. Analysis of the regulation of the Aspergillus nidulans penicillin biosynthesis gene aat (penDE), which encodes acyl coenzyme A:6-aminopenicillanic acid acyltransferase. Mol Gen Genet. 1995 Dec 15;249(5):557–569. doi: 10.1007/BF00290581. [DOI] [PubMed] [Google Scholar]
- MacCabe A. P., van Liempt H., Palissa H., Unkles S. E., Riach M. B., Pfeifer E., von Döhren H., Kinghorn J. R. Delta-(L-alpha-aminoadipyl)-L-cysteinyl-D-valine synthetase from Aspergillus nidulans. Molecular characterization of the acvA gene encoding the first enzyme of the penicillin biosynthetic pathway. J Biol Chem. 1991 Jul 5;266(19):12646–12654. [PubMed] [Google Scholar]
- Maity S. N., Golumbek P. T., Karsenty G., de Crombrugghe B. Selective activation of transcription by a novel CCAAT binding factor. Science. 1988 Jul 29;241(4865):582–585. doi: 10.1126/science.3399893. [DOI] [PubMed] [Google Scholar]
- Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
- McKnight S., Tjian R. Transcriptional selectivity of viral genes in mammalian cells. Cell. 1986 Sep 12;46(6):795–805. doi: 10.1016/0092-8674(86)90061-9. [DOI] [PubMed] [Google Scholar]
- Menne S., Walz M., Kück U. Expression studies with the bidirectional pcbAB-pcbC promoter region from Acremonium chrysogenum using reporter gene fusions. Appl Microbiol Biotechnol. 1994 Oct;42(1):57–66. doi: 10.1007/BF00170225. [DOI] [PubMed] [Google Scholar]
- Mitchell P. J., Tjian R. Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins. Science. 1989 Jul 28;245(4916):371–378. doi: 10.1126/science.2667136. [DOI] [PubMed] [Google Scholar]
- Morgan W. D., Williams G. T., Morimoto R. I., Greene J., Kingston R. E., Tjian R. Two transcriptional activators, CCAAT-box-binding transcription factor and heat shock transcription factor, interact with a human hsp70 gene promoter. Mol Cell Biol. 1987 Mar;7(3):1129–1138. doi: 10.1128/mcb.7.3.1129. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Nagata O., Takashima T., Tanaka M., Tsukagoshi N. Aspergillus nidulans nuclear proteins bind to a CCAAT element and the adjacent upstream sequence in the promoter region of the starch-inducible Taka-amylase A gene. Mol Gen Genet. 1993 Feb;237(1-2):251–260. doi: 10.1007/BF00282807. [DOI] [PubMed] [Google Scholar]
- Pinkham J. L., Guarente L. Cloning and molecular analysis of the HAP2 locus: a global regulator of respiratory genes in Saccharomyces cerevisiae. Mol Cell Biol. 1985 Dec;5(12):3410–3416. doi: 10.1128/mcb.5.12.3410. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Plumbridge J. Co-ordinated regulation of amino sugar biosynthesis and degradation: the NagC repressor acts as both an activator and a repressor for the transcription of the glmUS operon and requires two separated NagC binding sites. EMBO J. 1995 Aug 15;14(16):3958–3965. doi: 10.1002/j.1460-2075.1995.tb00067.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Punt P. J., Greaves P. A., Kuyvenhoven A., van Deutekom J. C., Kinghorn J. R., Pouwels P. H., van den Hondel C. A. A twin-reporter vector for simultaneous analysis of expression signals of divergently transcribed, contiguous genes in filamentous fungi. Gene. 1991 Jul 31;104(1):119–122. doi: 10.1016/0378-1119(91)90476-r. [DOI] [PubMed] [Google Scholar]
- Pérez-Esteban B., Gómez-Pardo E., Peñalva M. A. A lacZ reporter fusion method for the genetic analysis of regulatory mutations in pathways of fungal secondary metabolism and its application to the Aspergillus nidulans penicillin pathway. J Bacteriol. 1995 Nov;177(21):6069–6076. doi: 10.1128/jb.177.21.6069-6076.1995. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pérez-Esteban B., Orejas M., Gómez-Pardo E., Peñalva M. A. Molecular characterization of a fungal secondary metabolism promoter: transcription of the Aspergillus nidulans isopenicillin N synthetase gene is modulated by upstream negative elements. Mol Microbiol. 1993 Aug;9(4):881–895. doi: 10.1111/j.1365-2958.1993.tb01746.x. [DOI] [PubMed] [Google Scholar]
- Queener S. W. Molecular biology of penicillin and cephalosporin biosynthesis. Antimicrob Agents Chemother. 1990 Jun;34(6):943–948. doi: 10.1128/aac.34.6.943. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Raymondjean M., Cereghini S., Yaniv M. Several distinct "CCAAT" box binding proteins coexist in eukaryotic cells. Proc Natl Acad Sci U S A. 1988 Feb;85(3):757–761. doi: 10.1073/pnas.85.3.757. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Richardson I. B., Katz M. E., Hynes M. J. Molecular characterization of the lam locus and sequences involved in regulation by the AmdR protein of Aspergillus nidulans. Mol Cell Biol. 1992 Jan;12(1):337–346. doi: 10.1128/mcb.12.1.337. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Santoro C., Mermod N., Andrews P. C., Tjian R. A family of human CCAAT-box-binding proteins active in transcription and DNA replication: cloning and expression of multiple cDNAs. Nature. 1988 Jul 21;334(6179):218–224. doi: 10.1038/334218a0. [DOI] [PubMed] [Google Scholar]
- Smith D. J., Earl A. J., Turner G. The multifunctional peptide synthetase performing the first step of penicillin biosynthesis in Penicillium chrysogenum is a 421,073 dalton protein similar to Bacillus brevis peptide antibiotic synthetases. EMBO J. 1990 Sep;9(9):2743–2750. doi: 10.1002/j.1460-2075.1990.tb07461.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Strähle U., Schmid W., Schütz G. Synergistic action of the glucocorticoid receptor with transcription factors. EMBO J. 1988 Nov;7(11):3389–3395. doi: 10.1002/j.1460-2075.1988.tb03212.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Tilburn J., Sarkar S., Widdick D. A., Espeso E. A., Orejas M., Mungroo J., Peñalva M. A., Arst H. N., Jr The Aspergillus PacC zinc finger transcription factor mediates regulation of both acid- and alkaline-expressed genes by ambient pH. EMBO J. 1995 Feb 15;14(4):779–790. doi: 10.1002/j.1460-2075.1995.tb07056.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
- el-Hodiri H. M., Perry M. Interaction of the CCAAT displacement protein with shared regulatory elements required for transcription of paired histone genes. Mol Cell Biol. 1995 Jul;15(7):3587–3596. doi: 10.1128/mcb.15.7.3587. [DOI] [PMC free article] [PubMed] [Google Scholar]
- van Gorcom R. F., Punt P. J., Pouwels P. H., van den Hondel C. A. A system for the analysis of expression signals in Aspergillus. Gene. 1986;48(2-3):211–217. doi: 10.1016/0378-1119(86)90079-x. [DOI] [PubMed] [Google Scholar]
- van Heeswijck R., Hynes M. J. The amdR product and a CCAAT-binding factor bind to adjacent, possibly overlapping DNA sequences in the promoter region of the Aspergillus nidulans amdS gene. Nucleic Acids Res. 1991 May 25;19(10):2655–2660. doi: 10.1093/nar/19.10.2655. [DOI] [PMC free article] [PubMed] [Google Scholar]