Hynes/Davis Lab Publications

Recent Publications 1995 - 2007

Bernardo, S.M.H., Gray, K.-A., Todd, R.B., Cheetham, B.F. and Katz, M.E. (2007) A regulatory role for non-catalytic hexokinases in Aspergillus nidulans. Molecular Genetics and Genomics. 277(5): 519-32.

Hynes, M.J., Murray, S.L., Duncan, A., Khew,G.S, and Davis, M.A. (2006). Regulatory genes controlling fatty acid catabolism and peroxisomal functions in the filamentous fungus, Aspergillus nidulans. Eukaryot. Cell 5: 794-805.

Monahan BJ, Askin MC, Hynes MJ and Davis MA (2006). Differential expression of Aspergillus nidulans ammonium permease genes is regulated by GATA transcription factor AreA. Eukaryot. Cell 5: 226-237.

Nayak T, Szewczyk E, Oakley CE, Osmani A, Ukil L, Murray SL, Hynes MJ, Osmani SA, Oakley BR. (2005) A versatile and efficient gene targeting system for Aspergillus nidulans. Genetics. 172:1557-1566.

Galagan, J.E., S. E. Calvo C. Cuomo, L-J. Ma,  J. Wortman, S. Batzoglou, S-I. Lee,  M. Ba-türkmen, C. C. Spevak, J. Clutterbuck, V. Kapitonov, J. Jurka, C. Scazzocchio, M. Farman, J. Butler, S. Purcell, S. Harris, G. H. Braus, O. Draht, S. Busch, C. D’Enfert, C. Bouchier, G. H. Goldman, D. Bell-Pedersen, S. Griffiths-Jones, J. H. Doonan, Jaehyuk Yu, K. Vienken, A. Pain, M. Freitag, E. U. Selker, D. B. Archer, M. Á. Peñalva, B. R. Oakley, M. Momany, T. Tanaka, T. Kumagai, K. Asai, M. Machida, W. C. Nierman, D. W. Denning, M. Caddick, M. Hynes, M. Paoletti, R. Fischer, B. Miller, P. Dyer, M. S. Sachs, S. A. Osmani, and B. Birren. Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae. (2005) Nature 438:1105- 1115.

Todd, R.B., Fraser, J.A., Wong K.H., Davis, M.A., and Hynes, M.J. (2005) Nuclear accumulation of the GATA factor AreA in response to complete nitrogen starvation by regulation of nuclear export. Eukaryotic Cell. 4(10): 1646-1653.

Boyce KJ, Hynes MJ, Andrianopoulos A. The Ras and Rho GTPases genetically interact to co-ordinately regulate cell polarity during development in Penicillium marneffei. Mol Microbiol. (2005) 55:1487-501.

Davis MA, Askin MC, Hynes MJ. Amino acid catabolism by an areA-regulated gene encoding an L-amino acid oxidase with broad substrate specificity in Aspergillus nidulans. Appl Environ Microbiol. (2005) 71(7):3551-5.

Polotnianka R, Monahan BJ, Hynes MJ, Davis MA.TamA interacts with LeuB, the homologue of Saccharomyces cerevisiae Leu3p, to regulate gdhA expression in Aspergillus nidulans. Mol Genet Genomics. (2004) 272:452-9.

Hynes,M.J. and Davis, M.A. ( 2004). Regulation of the amdS gene in  Aspergillus nidulans.  in The Mycota III. Biochemistry and Molecular Biology, 2nd Edition. R.Brambl and G.A.Marzluf (Eds.) Springer-Verlag, Berlin. Book chapter.

Hynes MJ, Todd RB. Detection of unpaired DNA at meiosis results in RNA-mediated silencing. Bioessays. (2003) 25:99-103.

Hynes MJ. The Neurospora crassa genome opens up the world of filamentous fungi. Genome Biol. (2003). 4(6):217.

Todd,R.B., Greenhalgh,J.R., Hynes, M.J. and Andrianopoulos,A. (2003). The Penicillium marneffei TUP1 homolog represses both pathogenic yeast and infectious spore development. Mol. Microbiol., 48: 85-94.

Boyce,K.J, Hynes, M.J. and Andrianopoulos,A. (2003). Control of morphogenesis and actin localization by the Penicillium marneffei RAC homolog. J. Cell Sci., 116: 1249-1260.

Zuber,S., Hynes, M.J. and Andrianopoulos,A. (2003). The G-protein a subunit GasC plays a major role in germination in the dimorphic fungus Penicillium marneffei. Genetics, 164: 487-499.

Borneman,A.R., Hynes, M.J. and Andrianopoulos,A. ( 2002 ). A basic helix-loop-helix protein with similarity to the fungal morphological regulators Phd1p, Efg1p and StuA, controls conidiation but not dimorphic growth in Penicillium marneffei. Molec. Microbiology.44:621-631. ( cover picture ).

Fraser,J.A. ,Davis,M.A. and Hynes,M.J. (2002 ). A gene from Aspergillus nidulans with similarity to URE2 of S.cerevisiae encodes a glutathioneS-transferase which contributes to heavy metal and xenobiotic resistance. Applied and Environmental Microbiology. 68:2802-2808.

Monahan ,B.J. Unkles,S.E.. I, T.T., Kinghorn, J.R., Hynes,M.J. and Davis,M.A. ( 2002 ). Mutation and functional analysis of the ammonium permease MeaA and evidence for interaction with itself and MepA. Fungal Genetics and Biology. 36:35-46.

Zuber,S., Hynes,M.J. and Andrianopoulos,A. (2002 ). G-protein signaling mediates asexual development at 25°C, but has no effect on yeast-like growth at 37°C in the dimorphic fungus Penicillium marneffei. Eukaryotic Cell. 1: 440-447

Monahan, B.J. ,Fraser ,J.A., Hynes,M.J., and Davis, M.A. ( 2002).The isolation and characterisation of two ammonium permease genes, meaA and mepA, from Aspergillus nidulans. Eukaryotic Cell 1: 85-94.

Hynes MJ, Draht OW, Davis MA. ( 2002 ) Regulation of the acuF gene, encoding phosphoenol-pyruvate carboxykinase in the filamentous fungus Aspergillus nidulans. J. Bacteriol. 184:183-190.

Fraser ,J.A., Davis,M.A., Hynes,M.J. (2002).The genes gmdA,encoding an amidase, and bzuA, encoding a cytochrome P450, are required for benzamide utilisation in Aspergillus nidulans. Fungal Genetics and Biology 35:135-146.

Szewczyk,E., Andrianopoulos,A. Davis,M.A., Hynes,M.J. (2001). A single gene produces mitochondrial, cytoplasmic and peroxisomal NADP-dependent isocitrate dehydrogenase in Aspergillus nidulans. J. Biol. Chem. 276:37722-37729. ( cover picture ).

Margelis,S., D'Souza,C., Small,A.J., Hynes,M.J., Adams,T.H. and Davis,M.A. (2001).The role of glutamine synthetase in nitrogen metabolite repression in Aspergillus nidulans. J.Bacteriol.183:5826-5833.

Tanaka A. Kamai K. Tanoue S. Papagiannopoulos P. Steidl S. Brakhage AA. Davis MA. Hynes MJ. Kato M. Kobayashi T. Tsukagoshi N.(2001). AoHapB, AoHapC and AoHapE, subunits of the Aspergillus oryzae CCAAT-binding complex, are functionally interchangeable with the corresponding subunits in Aspergillus nidulans. Current Genetics. 39(3):175-182.

Boyce,K.J, Hynes,M.J. and Andrianopoulos,A. (2001). The CDC42 homolog of the dimorphic fungus Penicillium marneffei is required for correct cell polarization during growth but not development. J. Bacteriol. 183 :3447-3457.

Borneman, A.R., Hynes, M.J. and Andrianopoulos,A.( 2001) An STE12 homolog from the asexual , dimorphic fungus Penicillium marneffei complements the defect in sexual development of an Aspergillus nidulans steA mutant. Genetics 157: 1003-1014.

Small,A.J., ToddR,B., Zanker,M.C., Delimitrou,S., Hynes,M.J. and Davis,M.A.(2001).Functioal analysis of TamA , a coactivator of nitrogen regulated gene expression, in Aspergillus nidulans. Mol.Genet.Genomics 265:636-646.

Steidl,S., Hynes,M.J. and Brakhage,A.A. (2001). The Aspergillus nidulans multimeric CCAAT binding complex AnCF is negatively autoregulated via its hapB subunit gene. J.Mol.Biol. 306: 643-653.

Fraser,J.,Davis,M.A. and Hynes,M.J. (2001) .The formamidase gene of Aspergillus nidulans: Regulation by nitrogen metabolite repression and transcriptional interference by an overlappingupstream gene. Genetics 157:119-131.

Borneman,A.R., Hynes,M.J. and Andrianopoulos,A. (2000).The abaA homologue of Penicillium marneffei participates in two developmental programmes: conidiation anddimorphic growth. Molec.Microbiol. 38:1034-1047.

Tanaka, A., Kato, M. ,Hashimoto, H., Kamei, K., Naruse, F., Papagiannopoulos, P., Davis, M.A., Hynes, M.J., Kobayashi, T., Tsukagoshi, N. (2000). An Aspergillus oryzae CCAAT-binding protein, AoCP, is involved in the high level expression of the Taka-amylase A gene. Curr. Genet. 37: 380-387.

Narendja, F.M., Davis, M.A. and Hynes, M.J. (1999). AnCF, the CCAAT binding complex of Aspergillus nidulans is essential for the formation of a DNase I hypersensitive site in the 5' region of the amdS gene. Mol. Cell. Biol. 19:6523-6531.

Brakhage, A.A., Andrianopoulos, A., Kato, M., Steidl, S., Davis, M.A., Tsukagoshi, N. and Hynes, M.J. (1999). HAP-like CCAAT-binding complexes in filamentous fungi: implications for biotechnology. Fungal Genetics and Biology 27:243-252.

Small, A.J., Hynes, M.J. and Davis, M.A (1999). The TamA protein fused to a DNA binding domain can recruit AreA, the major nitrogen regulatory protein, to activate gene expression in Aspergillus nidulans. Genetics 153:95-105.

Steidl, S., Papagiannopoulos, P., Litzka ,O., Andrianopoulos, A., Davis, M.A., Brakhage, A.A. and Hynes, M. J. (1999). AnCF, the CCAAT binding complex of Aspergillus nidulans, contains products of the hapB, hapC, and hapE genes and is required for activation by the pathway-specific regulatory gene amdR. Mol. Cell. Biol. 19: 99-106

Macheda, M., Hynes, M.J. and Davis, M.A. (1999). The Aspergillus nidulans gltA gene encoding glutamate synthase is required for ammonium assimilation in the absence of NADP-glutamate dehydrogenase. Curr. Genet. 34: 467-471

Stemple, C.J., Davis, M.A. and Hynes, M.J. (1998). The facC gene of Aspergillus nidulans encodes an acetate-inducible carnitine acetyltransferase. J. Bacteriol. 180: 6242-6251.

Litzka, O., Papagiannopoulos, P., Davis, M.A., Hynes, M.J. and Brakhage, A.A. (1998). The penicillin regulator PENR1 of Aspergillus nidulans is a HAP-like transcriptional complex. Eur. J. Biochem. 251: 758-767.

Christensen, T., Hynes, M. J. and Davis, M. A. (1998). The role of the areA regulatory gene of Aspergillus oryzae in nitrogen metabolism. Appl. Environ. Microbiol. 64: 3232-3237.

Kato, M., Aoyama, A., Naruse, F., Tateyama, Y., Hayashi, K., Miyazaki, M., Papagiannopoulos, P., Davis, M.A., Hynes, M.J., Kobayashi, T. and Tsukagoshi, N. (1998). The Aspergillus nidulans CCAAT-binding factor AnCP/AnCF is a heteromeric protein analogous to the HAP complex of Saccharomyces cerevisiae. Mol. Gen. Genet. 257: 404-411.

Todd, R.B., Andrianopoulos, A., Davis, M.A. and Hynes, M.J. (1998). FacB, the Aspergillus nidulans activator of acetate utilization genes, binds dissimilar DNA sequences. EMBO J. 17: 2042-2054.

Andrianopoulos, A., Kourambas, S., Sharp, J.A., Davis, M.A. and Hynes, M.J. (1998). Characterization of the Aspergillus nidulans nmrA gene involved in nitrogen metabolite repression. J. Bacteriol. 180: 1973-1977.

Davis, M.A. and Hynes, M.J. (1997). Why are nit-2 transformants of Aspergillus nidulans partially derepressed? Fungal Genetics Newsletter 44: 13-14.

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 Genetics and Biology 22: 28-38.

Todd, R.B., Kelly, J.M., Davis, M.A. and Hynes, M.J. (1997). Molecular characterization of mutants of the acetate regulatory gene facB of Aspergillus nidulans. Fungal Genetics and Biology 22: 92-102.

Andrianopoulos, A., Brons, J., Davis, M.A. and Hynes, M.J. (1997). The amdA regulatory gene of Aspergillus nidulans: Characterization of gain-of-function mutations and identification of binding sites for the gene product. Fungal Genetics and Biology 21: 50-63.

Todd, R., Murphy, R.L., Martin, H.M., Sharp, J.A., Davis, M.A., Katz, M.E. and Hynes, M.J. (1997). The acetate regulatory gene facB of Aspergillus nidulans encodes a Zn(II)2Cys6 transcriptional activator. Mol. Gen. Genet. 254: 495-504.

Hynes, M.J. (1997). Genetic transformation of filamentous fungi. J. Genetics 75: 297-311.

Murphy, R.L., Andrianopoulos, A., Davis, M.A. and Hynes, M.J. (1997). Identification of amdX, a new C2H2 zinc finger gene involved in the regulation of the amdS gene of Aspergillus nidulans. Molec. Microbiol. 23: 591-602.

Davis, M.A., Small, A., Kourambas, S. and Hynes, M.J. (1996). The tamA gene of Aspergillus nidulans contains a putative zinc cluster motif which is not required for gene function. J. Bacteriol. 178: 3406-3409.

Papagiannopoulos, P., Andrianopoulos, A., Sharp, J.A., Davis, M.A. and Hynes, M.J. (1996). Deletion of the hapC gene of Aspergillus nidulans, a homologue of the yeast HAP3 gene, results in the loss of CCAAT binding to the amdS and gatA promoters. Mol. Gen. Genet. 251: 412-421.

Straffon, M.J., Hynes, M.J. and Davis, M.A. (1996). Characterization of the ugatA gene of Ustilago maydis isolated by homology to the gatA gene of Aspergillus nidulans. Curr. Genet. 29: 360-369.

Hynes, M.J. and Davis, M.A. (1996). Regulation of acetamide catabolism. In "The Mycota, Vol. III, Biochemistry and Molecular Biology". Eds. Bramble, R. and Marzluf, G.A., Heidelberg: Springer-Verlag, pp. 381-393.

Lints, R., Davis, M.A. and Hynes, M.J. (1995). A chromosome walk linking the gatA and alcC genes of Aspergillus nidulans. Fungal Genetics Newsletter 42: 44-45.

Lints, R., Davis, M.A. and Hynes, M.J. (1995). The positively acting amdA gene of Aspergillus nidulans encodes a protein with two C2H2 zinc-finger motifs. Molecular Microbiol. 15: 965-975.

Bonnefoy, N., Copsey, J., Hynes, M.J. and Davis, M.A. (1995). Yeast proteins can activate expression through regulatory sequences of the amdS gene of Aspergillus nidulans. Mol. Gen. Genet. 246: 223-227.

Williams, R.S.B., Davis, M.A. and Howlett, B.J. (1995). The nitrate and nitrite reductase-encoding genes of Leptosphaeria maculans are closely linked and transcribed in the same direction. Gene 158 : 153-154.