Regulation of nutrient utilization in filamentous fungi.

Adnan M, Zheng W, Islam W, Arif M, Abubakar YS, Wang Z, Lu G (2017) Carbon catabolite repression in filamentous fungi. Int J Mol Sci 19(1) https://doi.org/10.3390/ijms19010048

Alam MA, Kamlangdee N, Kelly JM (2017) The CreB deubiquitinating enzyme does not directly target the CreA repressor protein in Aspergillus nidulans. Curr Genet 63(4):647–667. https://doi.org/10.1007/s00294-016-0666-3

doi: 10.1007/s00294-016-0666-3 pubmed: 27878624

Alazi E, Niu J, Kowalczyk JE, Peng M, Aguilar Pontes MV, van Kan JA, Visser J, de Vries RP, Ram AF (2016) The transcriptional activator GaaR of Aspergillus niger is required for release and utilization of D-galacturonic acid from pectin. FEBS Lett. https://doi.org/10.1002/1873-3468.12211

doi: 10.1002/1873-3468.12211 pubmed: 27174630 pmcid: 5111758

Alazi E, Khosravi C, Homan TG, du Pré S, Arentshorst M, Di Falco M, Pham TTM, Peng M, Aguilar-Pontes MV, Visser J, Tsang A, de Vries RP, Ram AFJ (2017) The pathway intermediate 2-keto-3-deoxy-L-galactonate mediates the induction of genes involved in D-galacturonic acid utilization in Aspergillus niger. FEBS Lett 591(10):1408–1418. https://doi.org/10.1002/1873-3468.12654

doi: 10.1002/1873-3468.12654 pubmed: 28417461 pmcid: 5488244

Alazi E, Knetsch T, Di Falco M, Reid ID, Arentshorst M, Visser J, Tsang A, Ram AFJ (2018) Inducer-independent production of pectinases in Aspergillus niger by overexpression of the D-galacturonic acid-responsive transcription factor gaaR. Appl Microbiol Biotechnol 102(6):2723–2736. https://doi.org/10.1007/s00253-018-8753-7

doi: 10.1007/s00253-018-8753-7 pubmed: 29368217 pmcid: 5847190

Alazi E, Niu J, Otto SB, Arentshorst M, Pham TTM, Tsang A, Ram AFJ (2019) W361R mutation in GaaR, the regulator of D-galacturonic acid-responsive genes, leads to constitutive production of pectinases in Aspergillus niger. MicrobiologyOpen 8(5):e00732. https://doi.org/10.1002/mbo3.732

doi: 10.1002/mbo3.732 pubmed: 30298571

Amich J (2022) Sulfur metabolism as a promising source of new antifungal targets. J Fungi (Basel) 8(3) https://doi.org/10.3390/jof8030295

Ámon J, Fernández-Martín R, Bokor E, Cultrone A, Kelly JM, Flipphi M, Scazzocchio C, Hamari Z (2017) A eukaryotic nicotinate-inducible gene cluster: convergent evolution in fungi and bacteria. Open Biol 7(12) https://doi.org/10.1098/rsob.170199

An Y, Lu W, Li W, Pan L, Lu M, Cesarino I, Li Z, Zeng W (2022) Dietary fiber in plant cell walls—the healthy carbohydrates. Food Quality and Safety 6 https://doi.org/10.1093/fqsafe/fyab037

Andrianopoulos A, Kourambas S, Sharp JA, Davis MA, Hynes MJ (1998) Characterization of the Aspergillus nidulans nmrA gene involved in nitrogen metabolite repression. J Bacteriol 180(7):1973–1977. https://doi.org/10.1128/jb.180.7.1973-1977.1998

doi: 10.1128/jb.180.7.1973-1977.1998 pubmed: 9537404 pmcid: 107119

Antonieto AC, dos Santos CL, Silva-Rocha R, Persinoti GF, Silva RN (2014) Defining the genome-wide role of CRE1 during carbon catabolite repression in Trichoderma reesei using RNA-Seq analysis. Fungal Genet Biol 73:93–103. https://doi.org/10.1016/j.fgb.2014.10.009

doi: 10.1016/j.fgb.2014.10.009 pubmed: 25459535

Arentshorst M, Falco MD, Moisan M-C, Reid ID, Spaapen TO, van Dam J, Demirci E, Powlowski J, Punt PJ, Tsang A (2021) Identification of a conserved transcriptional activator-repressor module controlling the expression of genes involved in tannic acid degradation and gallic acid utilization in Aspergillus niger. Front Fungal Biol 2:681631

doi: 10.3389/ffunb.2021.681631

Arentshorst M, Reijngoud J, Van Tol DJ, Reid ID, Arendsen Y, Pel HJ, Van Peij NN, Visser J, Punt PJ, Tsang A (2022) Utilization of ferulic acid in Aspergillus niger requires the transcription factor FarA and a newly identified Far-like protein (FarD) that lacks the canonical Zn (II) 2Cys6 domain. Front Fungal Biol 3:978845

doi: 10.3389/ffunb.2022.978845

Aro N, Saloheimo A, Ilmen M, Penttila M (2001) ACEII, a novel transcriptional activator involved in regulation of cellulase and xylanase genes of Trichoderma reesei. J Biol Chem 276(26):24309–24314. https://doi.org/10.1074/jbc.M003624200

doi: 10.1074/jbc.M003624200 pubmed: 11304525

Aro N, Ilmen M, Saloheimo A, Penttila M (2003) ACEI of Trichoderma reesei is a repressor of cellulase and xylanase expression. Appl Environ Microbiol 69(1):56–65

doi: 10.1128/AEM.69.1.56-65.2003 pubmed: 12513977 pmcid: 152388

Arst HN Jr, Cove DJ (1973) Nitrogen metabolite repression in Aspergillus nidulans. Mol Gen Genet 126(2):111–141. https://doi.org/10.1007/bf00330988

doi: 10.1007/bf00330988 pubmed: 4591376

Asch DK, Ziegler J, Min XJ (2021) Molecular evolution of genes involved in quinic acid utilization in fungi. Comput Mol Biol 11(5):1–15. https://doi.org/10.5376/cmb.2021.11.0005

doi: 10.5376/cmb.2021.11.0005

de Assis LJ, Manfiolli A, Mattos E, Fabri J, Malavazi I, Jacobsen ID, Brock M, Cramer RA, Thammahong A, Hagiwara D, Ries LNA, Goldman GH (2018a) Protein kinase A and high-osmolarity glycerol response pathways cooperatively control cell wall carbohydrate mobilization in Aspergillus fumigatus. mBio 9(6) https://doi.org/10.1128/mBio.01952-18

de Assis LJ, Ulas M, Ries LNA, El Ramli NAM, Sarikaya-Bayram O, Braus GH, Bayram O, Goldman GH (2018b) Regulation of Aspergillus nidulans CreA-mediated catabolite repression by the F-box proteins Fbx23 and Fbx47. mBio 9(3) https://doi.org/10.1128/mBio.00840-18

de Assis LJ, Silva LP, Bayram O, Dowling P, Kniemeyer O, Krüger T, Brakhage AA, Chen Y, Dong L, Tan K, Wong KH, Ries LNA, Goldman GH (2021) Carbon catabolite repression in filamentous fungi is regulated by phosphorylation of the transcription factor CreA. mBio 12(1) https://doi.org/10.1128/mBio.03146-20

Bailey C, Arst HN Jr (1975) Carbon catabolite repression in Aspergillus nidulans. Eur J Biochem 51(2):573–577

doi: 10.1111/j.1432-1033.1975.tb03958.x pubmed: 168071

Ballester AR, López-Pérez M, de la Fuente B, González-Candelas L (2019) Functional and pharmacological analyses of the role of Penicillium digitatum proteases on virulence. Microorganisms 7(7) https://doi.org/10.3390/microorganisms7070198

Bartnik E, Weglenski P (1974) Regulation of arginine catabolism in Aspergillus nidulans. Nature 250(467):590–592. https://doi.org/10.1038/250590a0

doi: 10.1038/250590a0 pubmed: 4602656

Battaglia E, Visser L, Nijssen A, van Veluw GJ, Wosten HA, de Vries RP (2011) Analysis of regulation of pentose utilisation in Aspergillus niger reveals evolutionary adaptations in Eurotiales. Stud Mycol 69(1):31–38. https://doi.org/10.3114/sim.2011.69.03

doi: 10.3114/sim.2011.69.03 pubmed: 21892241 pmcid: 3161754

Battaglia E, Zhou M, de Vries RP (2014) The transcriptional activators AraR and XlnR from Aspergillus niger regulate expression of pentose catabolic and pentose phosphate pathway genes. Res Microbiol 165(7):531–540. https://doi.org/10.1016/j.resmic.2014.07.013

doi: 10.1016/j.resmic.2014.07.013 pubmed: 25086261

Beattie SR, Mark KMK, Thammahong A, Ries LNA, Dhingra S, Caffrey-Carr AK, Cheng C, Black CC, Bowyer P, Bromley MJ, Obar JJ, Goldman GH, Cramer RA (2017) Filamentous fungal carbon catabolite repression supports metabolic plasticity and stress responses essential for disease progression. PLoS Pathog 13(4):e1006340. https://doi.org/10.1371/journal.ppat.1006340

doi: 10.1371/journal.ppat.1006340 pubmed: 28423062 pmcid: 5411099

Benocci T, Aguilar-Pontes MV, Zhou M, Seiboth B, de Vries RP (2017) Regulators of plant biomass degradation in ascomycetous fungi. Biotechnol Biofuels 10:152. https://doi.org/10.1186/s13068-017-0841-x

doi: 10.1186/s13068-017-0841-x pubmed: 28616076 pmcid: 5468973

Benocci T, Aguilar-Pontes MV, Kun RS, Seiboth B, de Vries RP, Daly P (2018) ARA1 regulates not only l-arabinose but also d-galactose catabolism in Trichoderma reesei. FEBS Lett 592(1):60–70. https://doi.org/10.1002/1873-3468.12932

doi: 10.1002/1873-3468.12932 pubmed: 29215697

Bernardes NE, Takeda AAS, Dreyer TR, Cupertino FB, Virgilio S, Pante N, Bertolini MC, Fontes MRM (2017) Nuclear transport of the Neurospora crassa NIT-2 transcription factor is mediated by importin-α. Biochem J 474(24):4091–4104. https://doi.org/10.1042/bcj20170654

doi: 10.1042/bcj20170654 pubmed: 29054975

Bernreiter A, Ramon A, Fernández-Martínez J, Berger H, Araújo-Bazan L, Espeso EA, Pachlinger R, Gallmetzer A, Anderl I, Scazzocchio C, Strauss J (2007) Nuclear export of the transcription factor NirA is a regulatory checkpoint for nitrate induction in Aspergillus nidulans. Mol Cell Biol 27(3):791–802. https://doi.org/10.1128/mcb.00761-06

doi: 10.1128/mcb.00761-06 pubmed: 17116695

Bhalla K, Qu X, Kretschmer M, Kronstad JW (2022) The phosphate language of fungi. Trends Microbiol 30(4):338–349. https://doi.org/10.1016/j.tim.2021.08.002

doi: 10.1016/j.tim.2021.08.002 pubmed: 34479774

Bibbins M, Crepin VF, Cummings NJ, Mizote T, Baker K, Mellits KH, Connerton IF (2002) A regulator gene for acetate utilisation from Neurospora crassa. Mol Genet Genomics 267(4):498–505. https://doi.org/10.1007/s00438-002-0682-5

doi: 10.1007/s00438-002-0682-5 pubmed: 12111557

bin Yusof MT, Kershaw MJ, Soanes DM, Talbot NJ (2014) FAR1 and FAR2 regulate the expression of genes associated with lipid metabolism in the rice blast fungus Magnaporthe oryzae. PLoS One 9(6):e99760. https://doi.org/10.1371/journal.pone.0099760

doi: 10.1371/journal.pone.0099760 pubmed: 24949933 pmcid: 4064970

Boase NA, Kelly JM (2004) A role for creD, a carbon catabolite repression gene from Aspergillus nidulans, in ubiquitination. Mol Microbiol 53(3):929–940. https://doi.org/10.1111/j.1365-2958.2004.04172.x

doi: 10.1111/j.1365-2958.2004.04172.x pubmed: 15255903

Bokor E, Flipphi M, Kocsubé S, Ámon J, Vágvölgyi C, Scazzocchio C, Hamari Z (2021) Genome organization and evolution of a eukaryotic nicotinate co-inducible pathway. Open Biol 11(9):210099. https://doi.org/10.1098/rsob.210099

doi: 10.1098/rsob.210099 pubmed: 34582709 pmcid: 8478523

Bokor E, Ámon J, Varga M, Szekeres A, Hegedűs Z, Jakusch T, Szakonyi Z, Flipphi M, Vágvölgyi C, Gácser A, Scazzocchio C, Hamari Z (2022) A complete nicotinate degradation pathway in the microbial eukaryote Aspergillus nidulans. Commun Biol 5(1):723. https://doi.org/10.1038/s42003-022-03684-3

doi: 10.1038/s42003-022-03684-3 pubmed: 35864155 pmcid: 9304392

Boyce KJ, McLauchlan A, Schreider L, Andrianopoulos A (2015) Intracellular growth is dependent on tyrosine catabolism in the dimorphic fungal pathogen Penicillium marneffei. PLoS Pathog 11(3):e1004790. https://doi.org/10.1371/journal.ppat.1004790

doi: 10.1371/journal.ppat.1004790 pubmed: 25812137 pmcid: 4374905

Bravo-Ruiz G, Ruiz-Roldán C, Roncero MI (2013) Lipolytic system of the tomato pathogen Fusarium oxysporum f. sp. lycopersici. Mol Plant Microbe Interact 26(9):1054–67. https://doi.org/10.1094/mpmi-03-13-0082-r

doi: 10.1094/mpmi-03-13-0082-r pubmed: 23718123

Brown NA, de Gouvea PF, Krohn NG, Savoldi M, Goldman GH (2013) Functional characterisation of the non-essential protein kinases and phosphatases regulating Aspergillus nidulans hydrolytic enzyme production. Biotechnol Biofuels 6(1):91. https://doi.org/10.1186/1754-6834-6-91

doi: 10.1186/1754-6834-6-91 pubmed: 23800192 pmcid: 3698209

Burger G, Strauss J, Scazzocchio C, Lang BF (1991) nirA, the pathway-specific regulatory gene of nitrate assimilation in Aspergillus nidulans, encodes a putative GAL4-type zinc finger protein and contains four introns in highly conserved regions. Mol Cell Biol 11(11):5746–5755. https://doi.org/10.1128/mcb.11.11.5746-5755.1991

doi: 10.1128/mcb.11.11.5746-5755.1991 pubmed: 1922075 pmcid: 361946

Caddick MX, Arst HN Jr, Taylor LH, Johnson RI, Brownlee AG (1986) Cloning of the regulatory gene areA mediating nitrogen metabolite repression in Aspergillus nidulans. Embo J 5(5):1087–1090. https://doi.org/10.1002/j.1460-2075.1986.tb04326.x

doi: 10.1002/j.1460-2075.1986.tb04326.x pubmed: 3013617 pmcid: 1166905

Case ME, Hautala JA, Giles NH (1977) Characterization of qa-2 mutants of Neurospora crassa by genetic, enzymatic, and immunological techniques. J Bacteriol 129(1):166–172. https://doi.org/10.1128/jb.129.1.166-172.1977

doi: 10.1128/jb.129.1.166-172.1977 pubmed: 137228 pmcid: 234910

Case ME, Pueyo C, Barea JL, Giles NH (1978) Genetical and biochemical characterization of QA-3 mutants and revertants in the QA gene cluster of Neurospora crassa. Genetics 90(1):69–84. https://doi.org/10.1093/genetics/90.1.69

doi: 10.1093/genetics/90.1.69 pubmed: 151647 pmcid: 1213882

Case ME, Geever RF, Asch DK (1992) Use of gene replacement transformation to elucidate gene function in the qa gene cluster of Neurospora crassa. Genetics 130(4):729–736. https://doi.org/10.1093/genetics/130.4.729

doi: 10.1093/genetics/130.4.729 pubmed: 1533844 pmcid: 1204924

Cecchetto G, Richero M, Oestreicher N, Muro-Pastor MI, Pantano S, Scazzocchio C (2012) Mutations in the basic loop of the Zn binuclear cluster of the UaY transcriptional activator suppress mutations in the dimerisation domain. Fungal Genet Biol 49(9):731–743. https://doi.org/10.1016/j.fgb.2012.06.009

doi: 10.1016/j.fgb.2012.06.009 pubmed: 22760060

Chen L, Zou G, Zhang L, de Vries RP, Yan X, Zhang J, Liu R, Wang C, Qu Y, Zhou Z (2014) The distinctive regulatory roles of PrtT in the cell metabolism of Penicillium oxalicum. Fungal Genet Biol 63:42–54. https://doi.org/10.1016/j.fgb.2013.12.001

doi: 10.1016/j.fgb.2013.12.001 pubmed: 24333140

Chen Y, Lin A, Liu P, Fan X, Wu C, Li N, Wei L, Wang W, Wei D (2021) Trichoderma reesei ACE4, a novel transcriptional activator involved in the regulation of cellulase genes during growth on cellulose. Appl Environ Microbiol 87(15):e0059321. https://doi.org/10.1128/aem.00593-21

doi: 10.1128/aem.00593-21 pubmed: 34047636

Chen Y, Dong L, Alam MA, Pardeshi L, Miao Z, Wang F, Tan K, Hynes MJ, Kelly JM, Wong KH (2022) Carbon catabolite repression governs diverse physiological processes and development in Aspergillus nidulans. mBio 13(1):e0373421. https://doi.org/10.1128/mbio.03734-21

doi: 10.1128/mbio.03734-21

Chiang TY, Marzluf GA (1995) Binding affinity and functional significance of NIT2 and NIT4 binding sites in the promoter of the highly regulated nit-3 gene, which encodes nitrate reductase in Neurospora crassa. J Bacteriol 177(21):6093–6099. https://doi.org/10.1128/jb.177.21.6093-6099.1995

doi: 10.1128/jb.177.21.6093-6099.1995 pubmed: 7592372 pmcid: 177447

Christensen U, Gruben BS, Madrid S, Mulder H, Nikolaev I, de Vries RP (2011) Unique regulatory mechanism for D-galactose utilization in Aspergillus nidulans. Appl Environ Microbiol 77(19):7084–7087. https://doi.org/10.1128/aem.05290-11

doi: 10.1128/aem.05290-11 pubmed: 21821745 pmcid: 3187109

Chroumpi T, Aguilar-Pontes MV, Peng M, Wang M, Lipzen A, Ng V, Grigoriev IV, Mäkelä MR, de Vries RP (2020) Identification of a gene encoding the last step of the L-rhamnose catabolic pathway in Aspergillus niger revealed the inducer of the pathway regulator. Microbiol Res 234:126426. https://doi.org/10.1016/j.micres.2020.126426

doi: 10.1016/j.micres.2020.126426 pubmed: 32062364

Chroumpi T, Martínez-Reyes N, Kun RS, Peng M, Lipzen A, Ng V, Tejomurthula S, Zhang Y, Grigoriev IV, Mäkelä MR, de Vries RP, Garrigues S (2022) Detailed analysis of the D-galactose catabolic pathways in Aspergillus niger reveals complexity at both metabolic and regulatory level. Fungal Genet Biol 159:103670. https://doi.org/10.1016/j.fgb.2022.103670

doi: 10.1016/j.fgb.2022.103670 pubmed: 35121171

Chudzicka-Ormaniec P, Macios M, Koper M, Weedall GD, Caddick MX, Weglenski P, Dzikowska A (2019) The role of the GATA transcription factor AreB in regulation of nitrogen and carbon metabolism in Aspergillus nidulans. FEMS Microbiol Lett 366(6) https://doi.org/10.1093/femsle/fnz066

Clifford MN, Jaganath IB, Ludwig IA, Crozier A (2017) Chlorogenic acids and the acyl-quinic acids: discovery, biosynthesis, bioavailability and bioactivity. Nat Prod Rep 34(12):1391–1421. https://doi.org/10.1039/c7np00030h

doi: 10.1039/c7np00030h pubmed: 29160894

Cohen BL (1973) Regulation of intracellular and extracellular neutral and alkaline proteases in Aspergillus nidulans. J Gen Microbiol 79(2):311–320. https://doi.org/10.1099/00221287-79-2-311

doi: 10.1099/00221287-79-2-311 pubmed: 4589332

Coradetti ST, Craig JP, Xiong Y, Shock T, Tian C, Glass NL (2012) Conserved and essential transcription factors for cellulase gene expression in ascomycete fungi. Proc Natl Acad Sci U S A 109(19):7397–7402

doi: 10.1073/pnas.1200785109 pubmed: 22532664 pmcid: 3358856

Coradetti ST, Xiong Y, Glass NL (2013) Analysis of a conserved cellulase transcriptional regulator reveals inducer-independent production of cellulolytic enzymes in Neurospora crassa. MicrobiologyOpen 2(4):595–609. https://doi.org/10.1002/mbo3.94

doi: 10.1002/mbo3.94 pubmed: 23766336 pmcid: 3948607

Craig JP, Coradetti ST, Starr TL, Glass NL (2015) Direct target network of the Neurospora crassa plant cell wall deconstruction regulators CLR-1, CLR-2, and XLR-1. Mbio 6(5):e01452-e1515. https://doi.org/10.1128/mBio.01452-15

doi: 10.1128/mBio.01452-15 pubmed: 26463163 pmcid: 4620465

Cupertino FB, Virgilio S, Freitas FZ, Candido Tde S, Bertolini MC (2015) Regulation of glycogen metabolism by the CRE-1, RCO-1 and RCM-1 proteins in Neurospora crassa. The role of CRE-1 as the central transcriptional regulator. Fungal Genet Biol 77:82–94. https://doi.org/10.1016/j.fgb.2015.03.011

doi: 10.1016/j.fgb.2015.03.011 pubmed: 25889113

Cziferszky A, Mach RL, Kubicek CP (2002) Phosphorylation positively regulates DNA binding of the carbon catabolite repressor Cre1 of Hypocrea jecorina (Trichoderma reesei). J Biol Chem 277(17):14688–14694. https://doi.org/10.1074/jbc.M200744200

doi: 10.1074/jbc.M200744200 pubmed: 11850429

Dalal CK, Johnson AD (2017) How transcription circuits explore alternative architectures while maintaining overall circuit output. Genes Dev 31(14):1397–1405. https://doi.org/10.1101/gad.303362.117

doi: 10.1101/gad.303362.117 pubmed: 28860157 pmcid: 5588923

Davis MA, Hynes MJ (1987) Complementation of areA- regulatory gene mutations of Aspergillus nidulans by the heterologous regulatory gene nit-2 of Neurospora crassa. Proc Natl Acad Sci U S A 84(11):3753–3757. https://doi.org/10.1073/pnas.84.11.3753

doi: 10.1073/pnas.84.11.3753 pubmed: 2954160 pmcid: 304954

Davis MA, Small AJ, Kourambas S, Hynes MJ (1996) The tamA gene of Aspergillus nidulans contains a putative zinc cluster motif which is not required for gene function. J Bacteriol 178(11):3406–3409. https://doi.org/10.1128/jb.178.11.3406-3409.1996

doi: 10.1128/jb.178.11.3406-3409.1996 pubmed: 8655534 pmcid: 178106

de Assis LJ, Ries LN, Savoldi M, Dos Reis TF, Brown NA, Goldman GH (2015) Aspergillus nidulans protein kinase A plays an important role in cellulase production. Biotechnol Biofuels 8:213. https://doi.org/10.1186/s13068-015-0401-1

doi: 10.1186/s13068-015-0401-1 pubmed: 26690721 pmcid: 4683954

de Assis LJ, Silva LP, Liu L, Schmitt K, Valerius O, Braus GH, Ries LNA, Goldman GH (2020) The high osmolarity glycerol mitogen-activated protein kinase regulates glucose catabolite repression in filamentous fungi. PLoS Genet 16(8):e1008996. https://doi.org/10.1371/journal.pgen.1008996

doi: 10.1371/journal.pgen.1008996 pubmed: 32841242 pmcid: 7473523

De Groot MJ, Van Den Dool C, Wösten HA, Levisson M, VanKuyk PA, Ruijter GJ, De Vries RP (2007) Regulation of pentose catabolic pathway genes of Aspergillus niger. Food Technology and Biotechnology 45(2):134–138

De Vit MJ, Waddle JA, Johnston M (1997) Regulated nuclear translocation of the Mig1 glucose repressor. Mol Biol Cell 8(8):1603–1618

doi: 10.1091/mbc.8.8.1603 pubmed: 9285828 pmcid: 276179

Dementhon K, Iyer G, Glass NL (2006) VIB-1 is required for expression of genes necessary for programmed cell death in Neurospora crassa. Eukaryot Cell 5(12):2161–2173. https://doi.org/10.1128/ec.00253-06

doi: 10.1128/ec.00253-06 pubmed: 17012538 pmcid: 1694810

Derntl C, Gudynaite-Savitch L, Calixte S, White T, Mach RL, Mach-Aigner AR (2013) Mutation of the xylanase regulator 1 causes a glucose blind hydrolase expressing phenotype in industrially used Trichoderma strains. Biotechnol Biofuels 6:62

doi: 10.1186/1754-6834-6-62 pubmed: 23638967 pmcid: 3654998

Van Dijck P, Brown NA, Goldman GH, Rutherford J, Xue C, Van Zeebroeck G (2017) Nutrient sensing at the plasma membrane of fungal cells. Microbiol Spectr 5(2) https://doi.org/10.1128/microbiolspec.FUNK-0031-2016

Doehlemann G, Ökmen B, Zhu W, Sharon A (2017) Plant pathogenic fungi. Microbiol Spectr 5(1) https://doi.org/10.1128/microbiolspec.FUNK-0023-2016

Donofrio NM, Oh Y, Lundy R, Pan H, Brown DE, Jeong JS, Coughlan S, Mitchell TK, Dean RA (2006) Global gene expression during nitrogen starvation in the rice blast fungus. Magnaporthe Grisea Fungal Genet Biol 43(9):605–617. https://doi.org/10.1016/j.fgb.2006.03.005

doi: 10.1016/j.fgb.2006.03.005 pubmed: 16731015

Downes DJ, Davis MA, Wong KH, Kreutzberger SD, Hynes MJ, Todd RB (2014) Dual DNA binding and coactivator functions of Aspergillus nidulans TamA, a Zn(II)2Cys6 transcription factor. Mol Microbiol 92(6):1198–1211. https://doi.org/10.1111/mmi.12620

doi: 10.1111/mmi.12620 pubmed: 24750216

Dowzer CE, Kelly JM (1991) Analysis of the creA gene, a regulator of carbon catabolite repression in Aspergillus nidulans. Mol Cell Biol 11(11):5701–5709

pubmed: 1922072 pmcid: 361941

Dzikowska A, Grzelak A, Gawlik J, Szewczyk E, Mrozek P, Borsuk P, Koper M, Empel J, Szczęsny P, Piłsyk S, Pękala M, Weglenski P (2015) KAEA (SUDPRO), a member of the ubiquitous KEOPS/EKC protein complex, regulates the arginine catabolic pathway and the expression of several other genes in Aspergillus nidulans. Gene 573(2):310–320. https://doi.org/10.1016/j.gene.2015.07.066

doi: 10.1016/j.gene.2015.07.066 pubmed: 26210809

Empel J, Sitkiewicz I, Andrukiewicz A, Lasocki K, Borsuk P, Weglenski P (2001) arcA, the regulatory gene for the arginine catabolic pathway in Aspergillus nidulans. Mol Genet Genomics 266(4):591–597. https://doi.org/10.1007/s004380100575

doi: 10.1007/s004380100575 pubmed: 11810230

Feng B, Marzluf GA (1998) Interaction between major nitrogen regulatory protein NIT2 and pathway-specific regulatory factor NIT4 is required for their synergistic activation of gene expression in Neurospora crassa. Mol Cell Biol 18(7):3983–3990. https://doi.org/10.1128/mcb.18.7.3983

doi: 10.1128/mcb.18.7.3983 pubmed: 9632783 pmcid: 108983

Feng B, Haas H, Marzluf GA (2000) ASD4, a new GATA factor of Neurospora crassa, displays sequence-specific DNA binding and functions in ascus and ascospore development. Biochemistry 39(36):11065–11073. https://doi.org/10.1021/bi000886j

doi: 10.1021/bi000886j pubmed: 10998244

Fillinger S, Felenbok B (1996) A newly identified gene cluster in Aspergillus nidulans comprises five novel genes localized in the alc region that are controlled both by the specific transactivator AlcR and the general carbon-catabolite repressor CreA. Mol Microbiol 20(3):475–488. https://doi.org/10.1046/j.1365-2958.1996.5301061.x

doi: 10.1046/j.1365-2958.1996.5301061.x pubmed: 8736527

Flipphi M, Kocialkowska J, Felenbok B (2002) Characteristics of physiological inducers of the ethanol utilization (alc) pathway in Aspergillus nidulans. Biochem J 364(Pt 1):25–31. https://doi.org/10.1042/bj3640025

doi: 10.1042/bj3640025 pubmed: 11988072 pmcid: 1222541

Froeliger EH, Carpenter BE (1996) NUT1, a major nitrogen regulatory gene in Magnaporthe grisea, is dispensable for pathogenicity. Mol Gen Genet 251(6):647–656. https://doi.org/10.1007/bf02174113

doi: 10.1007/bf02174113 pubmed: 8757395

Fu YH, Marzluf GA (1990) nit-2, the major positive-acting nitrogen regulatory gene of Neurospora crassa, encodes a sequence-specific DNA-binding protein. Proc Natl Acad Sci U S A 87(14):5331–5335. https://doi.org/10.1073/pnas.87.14.5331

doi: 10.1073/pnas.87.14.5331 pubmed: 2142530 pmcid: 54317

Fu YH, Feng B, Evans S, Marzluf GA (1995) Sequence-specific DNA binding by NIT4, the pathway-specific regulatory protein that mediates nitrate induction in Neurospora. Mol Microbiol 15(5):935–942. https://doi.org/10.1111/j.1365-2958.1995.tb02362.x

doi: 10.1111/j.1365-2958.1995.tb02362.x pubmed: 7596294

Gabriel R, Thieme N, Liu Q, Li F, Meyer LT, Harth S, Jecmenica M, Ramamurthy M, Gorman J, Simmons BA, McCluskey K, Baker SE, Tian C, Schuerg T, Singer SW, Fleißner A, Benz JP (2021) The F-box protein gene exo-1 is a target for reverse engineering enzyme hypersecretion in filamentous fungi. Proc Natl Acad Sci U S A 118(26) https://doi.org/10.1073/pnas.2025689118

Galanopoulou K, Scazzocchio C, Galinou ME, Liu W, Borbolis F, Karachaliou M, Oestreicher N, Hatzinikolaou DG, Diallinas G, Amillis S (2014) Purine utilization proteins in the Eurotiales: cellular compartmentalization, phylogenetic conservation and divergence. Fungal Genet Biol 69:96–108. https://doi.org/10.1016/j.fgb.2014.06.005

doi: 10.1016/j.fgb.2014.06.005 pubmed: 24970358

Gallmetzer A, Silvestrini L, Schinko T, Gesslbauer B, Hortschansky P, Dattenböck C, Muro-Pastor MI, Kungl A, Brakhage AA, Scazzocchio C, Strauss J (2015) Reversible oxidation of a conserved methionine in the nuclear export sequence determines subcellular distribution and activity of the fungal nitrate regulator NirA. PLoS Genet 11(7):e1005297. https://doi.org/10.1371/journal.pgen.1005297

doi: 10.1371/journal.pgen.1005297 pubmed: 26132230 pmcid: 4488483

Gao L, Xu Y, Song X, Li S, Xia C, Xu J, Qin Y, Liu G, Qu Y (2019) Deletion of the middle region of the transcription factor ClrB in Penicillium oxalicum enables cellulase production in the presence of glucose. J Biol Chem 294(49):18685–18697. https://doi.org/10.1074/jbc.RA119.010863

doi: 10.1074/jbc.RA119.010863 pubmed: 31659120 pmcid: 6901314

García I, Gonzalez R, Gómez D, Scazzocchio C (2004) Chromatin rearrangements in the prnD-prnB bidirectional promoter: dependence on transcription factors. Eukaryot Cell 3(1):144–156. https://doi.org/10.1128/ec.3.1.144-156.2004

doi: 10.1128/ec.3.1.144-156.2004 pubmed: 14871945 pmcid: 499541

Garrigues S, Kun RS, Peng M, Gruben BS, Benoit Gelber I, Mäkelä M, de Vries RP (2021) The cultivation method affects the transcriptomic response of Aspergillus niger to growth on sugar beet pulp. Microbiol Spectr 9(1):e0106421. https://doi.org/10.1128/Spectrum.01064-21

doi: 10.1128/Spectrum.01064-21 pubmed: 34431718

Geever RF, Huiet L, Baum JA, Tyler BM, Patel VB, Rutledge BJ, Case ME, Giles NH (1989) DNA sequence, organization and regulation of the qa gene cluster of Neurospora crassa. J Mol Biol 207(1):15–34. https://doi.org/10.1016/0022-2836(89)90438-5

doi: 10.1016/0022-2836(89)90438-5 pubmed: 2525625

Ghosh S, Hanumantha Rao K, Bhavesh NS, Das G, Dwivedi VP, Datta A (2014) N-acetylglucosamine (GlcNAc)-inducible gene GIG2 is a novel component of GlcNAc metabolism in Candida albicans. Eukaryot Cell 13(1):66–76. https://doi.org/10.1128/ec.00244-13

doi: 10.1128/ec.00244-13 pubmed: 24186949 pmcid: 3910961

Gómez D, Cubero B, Cecchetto G, Scazzocchio C (2002) PrnA, a Zn2Cys6 activator with a unique DNA recognition mode, requires inducer for in vivo binding. Mol Microbiol 44(2):585–597. https://doi.org/10.1046/j.1365-2958.2002.02939.x

doi: 10.1046/j.1365-2958.2002.02939.x pubmed: 11972793

Gomi K, Akeno T, Minetoki T, Ozeki K, Kumagai C, Okazaki N, Iimura Y (2000) Molecular cloning and characterization of a transcriptional activator gene, amyR, involved in the amylolytic gene expression in Aspergillus oryzae. Biosci Biotechnol Biochem 64(4):816–827. https://doi.org/10.1271/bbb.64.816

doi: 10.1271/bbb.64.816 pubmed: 10830498

Grant S, Roberts CF, Lamb H, Stout M, Hawkins AR (1988) Genetic regulation of the quinic acid utilization (QUT) gene cluster in Aspergillus nidulans. J Gen Microbiol 134(2):347–358. https://doi.org/10.1099/00221287-134-2-347

doi: 10.1099/00221287-134-2-347 pubmed: 3049934

Greene GH, McGary KL, Rokas A, Slot JC (2014) Ecology drives the distribution of specialized tyrosine metabolism modules in fungi. Genome Biol Evol 6(1):121–132. https://doi.org/10.1093/gbe/evt208

doi: 10.1093/gbe/evt208 pubmed: 24391152 pmcid: 3914699

Gruben BS, Zhou M, de Vries RP (2012) GalX regulates the D-galactose oxido-reductive pathway in Aspergillus niger. FEBS Lett 586(22):3980–3985. https://doi.org/10.1016/j.febslet.2012.09.029

doi: 10.1016/j.febslet.2012.09.029 pubmed: 23063944

Gruben BS, Zhou M, Wiebenga A, Ballering J, Overkamp KM, Punt PJ, de Vries RP (2014) Aspergillus niger RhaR, a regulator involved in L-rhamnose release and catabolism. Appl Microbiol Biotechnol 98(12):5531–5540. https://doi.org/10.1007/s00253-014-5607-9

doi: 10.1007/s00253-014-5607-9 pubmed: 24682478

Gurovic MSV, Viceconte FR, Bidegain MA, Dietrich J (2023) Regulation of lignocellulose degradation in microorganisms. J Appl Microbiol 134(1) https://doi.org/10.1093/jambio/lxac002

Haas H, Bauer B, Redl B, Stöffler G, Marzluf GA (1995) Molecular cloning and analysis of nre, the major nitrogen regulatory gene of Penicillium chrysogenum. Curr Genet 27(2):150–158. https://doi.org/10.1007/bf00313429

doi: 10.1007/bf00313429 pubmed: 7788718

Hagag S, Kubitschek-Barreira P, Neves GW, Amar D, Nierman W, Shalit I, Shamir R, Lopes-Bezerra L, Osherov N (2012) Transcriptional and proteomic analysis of the Aspergillus fumigatus ΔprtT protease-deficient mutant. PLoS One 7(4):e33604. https://doi.org/10.1371/journal.pone.0033604

doi: 10.1371/journal.pone.0033604 pubmed: 22514608 pmcid: 3326020

Hage H, Rosso MN (2021) Evolution of fungal carbohydrate-active enzyme portfolios and adaptation to plant cell-wall polymers. J Fungi (Basel) 7(3) https://doi.org/10.3390/jof7030185

Hakkinen M, Valkonen MJ, Westerholm-Parvinen A, Aro N, Arvas M, Vitikainen M, Penttila M, Saloheimo M, Pakula TM (2014) Screening of candidate regulators for cellulase and hemicellulase production in Trichoderma reesei and identification of a factor essential for cellulase production. Biotechnol Biofuels 7(1):14. https://doi.org/10.1186/1754-6834-7-14

doi: 10.1186/1754-6834-7-14 pubmed: 24472375 pmcid: 3922861

Han L, Tan Y, Ma W, Niu K, Hou S, Guo W, Liu Y, Fang X (2020) Precision engineering of the transcription factor Cre1 in Hypocrea jecorina (Trichoderma reesei) for efficient cellulase production in the presence of glucose. Front Bioeng Biotechnol 8:852. https://doi.org/10.3389/fbioe.2020.00852

doi: 10.3389/fbioe.2020.00852 pubmed: 32850722 pmcid: 7399057

Hanson MA, Marzluf GA (1975) Control of the synthesis of a single enzyme by multiple regulatory circuits in Neurospora crassa. Proc Natl Acad Sci U S A 72(4):1240–1244. https://doi.org/10.1073/pnas.72.4.1240

doi: 10.1073/pnas.72.4.1240 pubmed: 124058 pmcid: 432507

Hao Z, Zhao Y, Wang X, Wu J, Jiang S, Xiao J, Wang K, Zhou X, Liu H, Li J (2021) Thresholds in aridity and soil carbon-to-nitrogen ratio govern the accumulation of soil microbial residues. Commun Earth Environ 2(1):236

doi: 10.1038/s43247-021-00306-4

Hasegawa S, Takizawa M, Suyama H, Shintani T, Gomi K (2010) Characterization and expression analysis of a maltose-utilizing (MAL) cluster in Aspergillus oryzae. Fungal Genet Biol 47(1):1–9. https://doi.org/10.1016/j.fgb.2009.10.005

doi: 10.1016/j.fgb.2009.10.005 pubmed: 19850146

Hassan L, Lin L, Sorek H, Sperl LE, Goudoulas T, Hagn F, Germann N, Tian C, Benz JP (2019) Crosstalk of cellulose and mannan perception pathways leads to inhibition of cellulase production in several filamentous fungi. mBio 10(4) https://doi.org/10.1128/mBio.00277-19

Hoffmeister D (2016) Biochemistry and molecular biology, vol 3. Springer

doi: 10.1007/978-3-319-27790-5

Hong Y, Cai R, Guo J, Zhong Z, Bao J, Wang Z, Chen X, Zhou J, Lu GD (2021) Carbon catabolite repressor MoCreA is required for the asexual development and pathogenicity of the rice blast fungus. Fungal Genet Biol 146:103496. https://doi.org/10.1016/j.fgb.2020.103496

doi: 10.1016/j.fgb.2020.103496 pubmed: 33290821

Hou R, Jiang C, Zheng Q, Wang C, Xu JR (2015) The AreA transcription factor mediates the regulation of deoxynivalenol (DON) synthesis by ammonium and cyclic adenosine monophosphate (cAMP) signalling in Fusarium graminearum. Mol Plant Pathol 16(9):987–999. https://doi.org/10.1111/mpp.12254

doi: 10.1111/mpp.12254 pubmed: 25781642 pmcid: 6638501

Huang L, Dong L, Wang B, Pan L (2020) The transcription factor PrtT and its target protease profiles in Aspergillus niger are negatively regulated by carbon sources. Biotechnol Lett 42(4):613–624. https://doi.org/10.1007/s10529-020-02806-3

doi: 10.1007/s10529-020-02806-3 pubmed: 31970554

Huberman LB, Liu J, Qin L, Glass NL (2016) Regulation of the lignocellulolytic response in filamentous fungi. Fungal Biol Rev 30(3):101–111

doi: 10.1016/j.fbr.2016.06.001

Huberman LB, Coradetti ST, Glass NL (2017) Network of nutrient-sensing pathways and a conserved kinase cascade integrate osmolarity and carbon sensing in Neurospora crassa. Proc Natl Acad Sci U S A 114(41):E8665–E8674. https://doi.org/10.1073/pnas.1707713114

doi: 10.1073/pnas.1707713114 pubmed: 28973881 pmcid: 5642704

Huberman LB, Wu VW, Kowbel DJ, Lee J, Daum C, Grigoriev IV, O’Malley RC, Glass NL (2021) DNA affinity purification sequencing and transcriptional profiling reveal new aspects of nitrogen regulation in a filamentous fungus. Proc Natl Acad Sci U S A 118(13):e2009501118. https://doi.org/10.1073/pnas.2009501118

doi: 10.1073/pnas.2009501118 pubmed: 33753477 pmcid: 8020665

Huberman LB, Wu VW, Lee J, Daum C, O’Malley R, Glass NL (2021) Aspects of the Neurospora crassa sulfur starvation response are revealed by transcriptional profiling and DNA affinity purification sequencing. mSphere 6(5):e00564-21. https://doi.org/10.1128/mSphere.00564-21

doi: 10.1128/mSphere.00564-21 pubmed: 34523983 pmcid: 8550094

Huiet L (1984) Molecular analysis of the Neurospora qa-1 regulatory region indicates that two interacting genes control qa gene expression. Proc Natl Acad Sci U S A 81(4):1174–1178. https://doi.org/10.1073/pnas.81.4.1174

doi: 10.1073/pnas.81.4.1174 pubmed: 6322189 pmcid: 344788

Hull EP, Green PM, Arst HN Jr, Scazzocchio C (1989) Cloning and physical characterization of the L-proline catabolism gene cluster of Aspergillus nidulans. Mol Microbiol 3(4):553–559. https://doi.org/10.1111/j.1365-2958.1989.tb00201.x

doi: 10.1111/j.1365-2958.1989.tb00201.x pubmed: 2668692

Hunter CC, Siebert KS, Downes DJ, Wong KH, Kreutzberger SD, Fraser JA, Clarke DF, Hynes MJ, Davis MA, Todd RB (2014) Multiple nuclear localization signals mediate nuclear localization of the GATA transcription factor AreA. Eukaryot Cell 13(4):527–538. https://doi.org/10.1128/ec.00040-14

doi: 10.1128/ec.00040-14 pubmed: 24562911 pmcid: 4000105

Hynes MJ, Kelly JM (1977) Pleiotropic mutants of Aspergillus nidulans altered in carbon metabolism. Mol Gen Genet 150(2):193–204

doi: 10.1007/BF00695399 pubmed: 320455

Hynes MJ, Murray SL, Duncan A, Khew GS, Davis MA (2006) Regulatory genes controlling fatty acid catabolism and peroxisomal functions in the filamentous fungus Aspergillus nidulans. Eukaryot Cell 5(5):794–805. https://doi.org/10.1128/ec.5.5.794-805.2006

doi: 10.1128/ec.5.5.794-805.2006 pubmed: 16682457 pmcid: 1459687

Ishikawa K, Kunitake E, Kawase T, Atsumi M, Noguchi Y, Ishikawa S, Ogawa M, Koyama Y, Kimura M, Kanamaru K, Kato M, Kobayashi T (2018) Comparison of the paralogous transcription factors AraR and XlnR in Aspergillus oryzae. Curr Genet 64(6):1245–1260. https://doi.org/10.1007/s00294-018-0837-5

doi: 10.1007/s00294-018-0837-5 pubmed: 29654355

Ivanova C, Ramoni J, Aouam T, Frischmann A, Seiboth B, Baker SE, Le Crom S, Lemoine S, Margeot A, Bidard F (2017) Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 strain reveals a distal chromosome translocation to be responsible for loss of vib1 expression and loss of cellulase induction. Biotechnol Biofuels 10:209. https://doi.org/10.1186/s13068-017-0897-7

doi: 10.1186/s13068-017-0897-7 pubmed: 28912831 pmcid: 5588705

Jarai G, Buxton F (1994) Nitrogen, carbon, and pH regulation of extracellular acidic proteases of Aspergillus niger. Curr Genet 26(3):238–244. https://doi.org/10.1007/bf00309554

doi: 10.1007/bf00309554 pubmed: 7532112

Jones SA, Arst HN Jr, Macdonald DW (1981) Gene roles in the prn cluster of Aspergillus nidulans. Curr Genet 3(1):49–56. https://doi.org/10.1007/bf00419580

doi: 10.1007/bf00419580 pubmed: 24189952

Katz ME, Gray KA, Cheetham BF (2006) The Aspergillus nidulans xprG (phoG) gene encodes a putative transcriptional activator involved in the response to nutrient limitation. Fungal Genet Biol 43(3):190–199. https://doi.org/10.1016/j.fgb.2005.12.001

doi: 10.1016/j.fgb.2005.12.001 pubmed: 16464624

Katz ME, Buckland R, Hunter CC, Todd RB (2015) Distinct roles for the p53-like transcription factor XprG and autophagy genes in the response to starvation. Fungal Genet Biol 83:10–18. https://doi.org/10.1016/j.fgb.2015.08.006

doi: 10.1016/j.fgb.2015.08.006 pubmed: 26296599

Katz ME, Braunberger K, Yi G, Cooper S, Nonhebel HM, Gondro C (2013) A p53-like transcription factor similar to Ndt80 controls the response to nutrient stress in the filamentous fungus, Aspergillus nidulans. F1000Res 2:72 https://doi.org/10.12688/f1000research.2-72.v1

Keller S, Macheleidt J, Scherlach K, Schmaler-Ripcke J, Jacobsen ID, Heinekamp T, Brakhage AA (2011) Pyomelanin formation in Aspergillus fumigatus requires HmgX and the transcriptional activator HmgR but is dispensable for virulence. PLoS One 6(10):e26604. https://doi.org/10.1371/journal.pone.0026604

doi: 10.1371/journal.pone.0026604 pubmed: 22046314 pmcid: 3203155

Kelly JM, Hynes MJ (1977) Increased and decreased sensitivity to carbon catabolite repression of enzymes of acetate metabolism in mutants of Aspergillus nidulans. Mol Gen Genet 156(1):87–92

doi: 10.1007/BF00272256 pubmed: 23491

Khosravi C, Kun RS, Visser J, Aguilar-Pontes MV, de Vries RP, Battaglia E (2017) In vivo functional analysis of L-rhamnose metabolic pathway in Aspergillus niger: a tool to identify the potential inducer of RhaR. BMC Microbiol 17(1):214. https://doi.org/10.1186/s12866-017-1118-z

doi: 10.1186/s12866-017-1118-z pubmed: 29110642 pmcid: 5674754

Kitano H, Kataoka K, Furukawa K, Hara S (2002) Specific expression and temperature-dependent expression of the acid protease-encoding gene (pepA) in Aspergillus oryzae in solid-state culture (Rice-Koji). J Biosci Bioeng 93(6):563–567. https://doi.org/10.1016/s1389-1723(02)80238-9

doi: 10.1016/s1389-1723(02)80238-9 pubmed: 16233250

Klaubauf S, Zhou M, Lebrun MH, de Vries RP, Battaglia E (2016) A novel L-arabinose-responsive regulator discovered in the rice-blast fungus Pyricularia oryzae (Magnaporthe oryzae). FEBS Lett 590(4):550–558. https://doi.org/10.1002/1873-3468.12070

doi: 10.1002/1873-3468.12070 pubmed: 26790567

Kotaka M, Johnson C, Lamb HK, Hawkins AR, Ren J, Stammers DK (2008) Structural analysis of the recognition of the negative regulator NmrA and DNA by the zinc finger from the GATA-type transcription factor AreA. J Mol Biol 381(2):373–382. https://doi.org/10.1016/j.jmb.2008.05.077

doi: 10.1016/j.jmb.2008.05.077 pubmed: 18602114

Kowalczyk JE, Gruben BS, Battaglia E, Wiebenga A, Majoor E, de Vries RP (2015) Genetic interaction of Aspergillus nidulans galR, xlnR and araR in regulating D-galactose and L-arabinose release and catabolism gene expression. PLoS One 10(11):e0143200. https://doi.org/10.1371/journal.pone.0143200

doi: 10.1371/journal.pone.0143200 pubmed: 26580075 pmcid: 4651341

Krol K, Morozov IY, Jones MG, Wyszomirski T, Weglenski P, Dzikowska A, Caddick MX (2013) RrmA regulates the stability of specific transcripts in response to both nitrogen source and oxidative stress. Mol Microbiol 89(5):975–988. https://doi.org/10.1111/mmi.12324

doi: 10.1111/mmi.12324 pubmed: 23841692 pmcid: 4282371

Kulmburg P, Mathieu M, Dowzer C, Kelly J, 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(6):847–857. https://doi.org/10.1111/j.1365-2958.1993.tb01175.x

doi: 10.1111/j.1365-2958.1993.tb01175.x pubmed: 8483416

Kun RS, Salazar-Cerezo S, Peng M, Zhang Y, Savage E, Lipzen A, Ng V, Grigoriev IV, de Vries RP, Garrigues S (2023) The amylolytic regulator AmyR of Aspergillus niger is involved in sucrose and inulin utilization in a culture-condition-dependent manner. J Fungi (Basel) 9(4) https://doi.org/10.3390/jof9040438

Kunitake E, Li Y, Uchida R, Nohara T, Asano K, Hattori A, Kimura T, Kanamaru K, Kimura M, Kobayashi T (2019) CreA-independent carbon catabolite repression of cellulase genes by trimeric G-protein and protein kinase A in Aspergillus nidulans. Curr Genet 65(4):941–952. https://doi.org/10.1007/s00294-019-00944-4

doi: 10.1007/s00294-019-00944-4 pubmed: 30796472

Kunitake E, Uchida R, Asano K, Kanamaru K, Kimura M, Kimura T, Kobayashi T (2022) cAMP signaling factors regulate carbon catabolite repression of hemicellulase genes in Aspergillus nidulans. AMB Express 12(1):126. https://doi.org/10.1186/s13568-022-01467-x

doi: 10.1186/s13568-022-01467-x pubmed: 36183035 pmcid: 9526778

Lamb HK, Hawkins AR, Smith M, Harvey IJ, Brown J, Turner G, Roberts CF (1990) Spatial and biological characterisation of the complete quinic acid utilisation gene cluster in Aspergillus nidulans. Mol Gen Genet 223(1):17–23. https://doi.org/10.1007/bf00315792

doi: 10.1007/bf00315792 pubmed: 2175387

Lamb HK, Leslie K, Dodds AL, Nutley M, Cooper A, Johnson C, Thompson P, Stammers DK, Hawkins AR (2003) The negative transcriptional regulator NmrA discriminates between oxidized and reduced dinucleotides. J Biol Chem 278(34):32107–32114. https://doi.org/10.1074/jbc.M304104200

doi: 10.1074/jbc.M304104200 pubmed: 12764138

Lamb HK, Ren J, Park A, Johnson C, Leslie K, Cocklin S, Thompson P, Mee C, Cooper A, Stammers DK, Hawkins AR (2004) Modulation of the ligand binding properties of the transcription repressor NmrA by GATA-containing DNA and site-directed mutagenesis. Protein Sci 13(12):3127–3138. https://doi.org/10.1110/ps.04958904

doi: 10.1110/ps.04958904 pubmed: 15537757 pmcid: 2287298

Lei Y, Liu G, Yao G, Li Z, Qin Y, Qu Y (2016) A novel bZIP transcription factor ClrC positively regulates multiple stress responses, conidiation and cellulase expression in Penicillium oxalicum. Res Microbiol. https://doi.org/10.1016/j.resmic.2016.03.001

doi: 10.1016/j.resmic.2016.03.001 pubmed: 27012606

Li D, Kolattukudy PE (1997) Cloning of cutinase transcription factor 1, a transactivating protein containing Cys6Zn2 binuclear cluster DNA-binding motif. J Biol Chem 272(19):12462–12467. https://doi.org/10.1074/jbc.272.19.12462

doi: 10.1074/jbc.272.19.12462 pubmed: 9139694

Li D, Sirakova T, Rogers L, Ettinger WF, Kolattukudy PE (2002) Regulation of constitutively expressed and induced cutinase genes by different zinc finger transcription factors in Fusarium solani f. sp. pisi (Nectria haematococca). J Biol Chem 277(10):7905–12. https://doi.org/10.1074/jbc.M108799200

doi: 10.1074/jbc.M108799200 pubmed: 11756444

Li Z, Yao G, Wu R, Gao L, Kan Q, Liu M, Yang P, Liu G, Qin Y, Song X, Zhong Y, Fang X, Qu Y (2015) Synergistic and dose-controlled regulation of cellulase gene expression in Penicillium oxalicum. PLoS Genet 11(9):e1005509. https://doi.org/10.1371/journal.pgen.1005509

doi: 10.1371/journal.pgen.1005509 pubmed: 26360497 pmcid: 4567317

Li A, Parsania C, Tan K, Todd RB, Wong KH (2021a) Co-option of an extracellular protease for transcriptional control of nutrient degradation in the fungus Aspergillus nidulans. Commun Biol 4(1):1409. https://doi.org/10.1038/s42003-021-02925-1

doi: 10.1038/s42003-021-02925-1 pubmed: 34921231 pmcid: 8683493

Li J, Liu Q, Li J, Lin L, Li X, Zhang Y, Tian C (2021c) RCO-3 and COL-26 form an external-to-internal module that regulates the dual-affinity glucose transport system in Neurospora crassa. Biotechnol Biofuels 14(1):33. https://doi.org/10.1186/s13068-021-01877-2

doi: 10.1186/s13068-021-01877-2 pubmed: 33509260 pmcid: 7841889

Li C, Zhang Q, Xia Y, Jin K (2021b) MaAreB, a GATA transcription factor, is involved in nitrogen source utilization, stress tolerances and virulence in Metarhizium acridum. J Fungi (Basel) 7(7) https://doi.org/10.3390/jof7070512

Liao LS, Li CX, Zhang FF, Yan YS, Luo XM, Zhao S, Feng JX (2019) How an essential Zn2Cys6 transcription factor PoxCxrA regulates cellulase gene expression in ascomycete fungi? Biotechnol Biofuels 12:105. https://doi.org/10.1186/s13068-019-1444-5

doi: 10.1186/s13068-019-1444-5 pubmed: 31073329 pmcid: 6498484

Liu TD, Marzluf GA (2004) Characterization of pco-1, a newly identified gene which regulates purine catabolism in Neurospora. Curr Genet 46(4):213–227. https://doi.org/10.1007/s00294-004-0530-8

doi: 10.1007/s00294-004-0530-8 pubmed: 15378267

Liu G, Zhang L, Qin Y, Zou G, Li Z, Yan X, Wei X, Chen M, Chen L, Zheng K, Zhang J, Ma L, Li J, Liu R, Xu H, Bao X, Fang X, Wang L, Zhong Y, Liu W, Zheng H, Wang S, Wang C, Xun L, Zhao GP, Wang T, Zhou Z, Qu Y (2013) Long-term strain improvements accumulate mutations in regulatory elements responsible for hyper-production of cellulolytic enzymes. Sci Rep 3:1569. https://doi.org/10.1038/srep01569

doi: 10.1038/srep01569 pubmed: 23535838 pmcid: 3610096

Liu Q, Li J, Gao R, Li J, Ma G, Tian C (2019) CLR-4, a novel conserved transcription factor for cellulase gene expression in ascomycete fungi. Mol Microbiol 111(2):373–394. https://doi.org/10.1111/mmi.14160

doi: 10.1111/mmi.14160 pubmed: 30474279

Lockington RA, Kelly JM (2001) Carbon catabolite repression in Aspergillus nidulans involves deubiquitination. Mol Microbiol 40(6):1311–1321

doi: 10.1046/j.1365-2958.2001.02474.x pubmed: 11442830

Lockington RA, Kelly JM (2002) The WD40-repeat protein CreC interacts with and stabilizes the deubiquitinating enzyme CreB in vivo in Aspergillus nidulans. Mol Microbiol 43(5):1173–1182

doi: 10.1046/j.1365-2958.2002.02811.x pubmed: 11918805

Lockington RA, Sealy-Lewis HM, Scazzocchio C, Davies RW (1985) Cloning and characterization of the ethanol utilization regulon in Aspergillus nidulans. Gene 33(2):137–149. https://doi.org/10.1016/0378-1119(85)90088-5

doi: 10.1016/0378-1119(85)90088-5 pubmed: 3158573

Lubbers RJM, Dilokpimol A, Navarro J, Peng M, Wang M, Lipzen A, Ng V, Grigoriev IV, Visser J, Hildén KS, de Vries RP (2019a) Cinnamic acid and sorbic acid conversion are mediated by the same transcriptional regulator in Aspergillus niger. Front Bioeng Biotechnol 7:249. https://doi.org/10.3389/fbioe.2019.00249

doi: 10.3389/fbioe.2019.00249 pubmed: 31612133 pmcid: 6776626

Lubbers RJM, Dilokpimol A, Visser J, Mäkelä MR, Hildén KS, de Vries RP (2019) A comparison between the homocyclic aromatic metabolic pathways from plant-derived compounds by bacteria and fungi. Biotechnol Adv 37(7):107396. https://doi.org/10.1016/j.biotechadv.2019.05.002

doi: 10.1016/j.biotechadv.2019.05.002 pubmed: 31075306

Lubbers RJM, Dilokpimol A, Visser J, de Vries RP (2021) Aspergillus niger uses the peroxisomal CoA-dependent β-oxidative genes to degrade the hydroxycinnamic acids caffeic acid, ferulic acid, and p-coumaric acid. Appl Microbiol Biotechnol 105(10):4199–4211. https://doi.org/10.1007/s00253-021-11311-0

doi: 10.1007/s00253-021-11311-0 pubmed: 33950281 pmcid: 8140964

Luo X, Affeldt KJ, Keller NP (2016) Characterization of the Far transcription factor family in Aspergillus flavus. G3 (Bethesda) 6(10):3269–3281 https://doi.org/10.1534/g3.116.032466

Lv X, Zheng F, Li C, Zhang W, Chen G, Liu W (2015) Characterization of a copper responsive promoter and its mediated overexpression of the xylanase regulator 1 results in an induction-independent production of cellulases in Trichoderma reesei. Biotechnol Biofuels 8:67. https://doi.org/10.1186/s13068-015-0249-4

doi: 10.1186/s13068-015-0249-4 pubmed: 25926888 pmcid: 4413991

Mach-Aigner AR, Pucher ME, Steiger MG, Bauer GE, Preis SJ, Mach RL (2008) Transcriptional regulation of xyr1, encoding the main regulator of the xylanolytic and cellulolytic enzyme system in Hypocrea jecorina. Appl Environ Microbiol 74(21):6554–6562. https://doi.org/10.1128/aem.01143-08

doi: 10.1128/aem.01143-08 pubmed: 18791032 pmcid: 2576687

Macios M, Caddick MX, Weglenski P, Scazzocchio C, Dzikowska A (2012) The GATA factors AREA and AREB together with the co-repressor NMRA, negatively regulate arginine catabolism in Aspergillus nidulans in response to nitrogen and carbon source. Fungal Genet Biol 49(3):189–198. https://doi.org/10.1016/j.fgb.2012.01.004

doi: 10.1016/j.fgb.2012.01.004 pubmed: 22300944

Makita T, Katsuyama Y, Tani S, Suzuki H, Kato N, Todd RB, Hynes MJ, Tsukagoshi N, Kato M, Kobayashi T (2009) Inducer-dependent nuclear localization of a Zn(II)(2)Cys(6) transcriptional activator, AmyR. Aspergillus Nidulans Biosci Biotechnol Biochem 73(2):391–399. https://doi.org/10.1271/bbb.80654

doi: 10.1271/bbb.80654 pubmed: 19202286

Margelis S, D’Souza C, Small AJ, Hynes MJ, Adams TH, Davis MA (2001) Role of glutamine synthetase in nitrogen metabolite repression in Aspergillus nidulans. J Bacteriol 183(20):5826–5833. https://doi.org/10.1128/jb.183.20.5826-5833.2001

doi: 10.1128/jb.183.20.5826-5833.2001 pubmed: 11566979 pmcid: 99658

Marroquin-Guzman M, Wilson RA (2015) GATA-dependent glutaminolysis drives appressorium formation in Magnaporthe oryzae by suppressing TOR inhibition of cAMP/PKA signaling. PLoS Pathog 11(4):e1004851. https://doi.org/10.1371/journal.ppat.1004851

doi: 10.1371/journal.ppat.1004851 pubmed: 25901357 pmcid: 4406744

Marzluf GA (1997) Genetic regulation of nitrogen metabolism in the fungi. Microbiol Mol Biol Rev 61(1):17–32

pubmed: 9106362 pmcid: 232598

Meng J, Németh Z, Peng M, Fekete E, Garrigues S, Lipzen A, Ng V, Savage E, Zhang Y, Grigoriev IV, Mäkelä MR, Karaffa L, de Vries RP (2022) GalR, GalX and AraR co-regulate d-galactose and l-arabinose utilization in Aspergillus nidulans. Microb Biotechnol 15(6):1839–1851. https://doi.org/10.1111/1751-7915.14025

doi: 10.1111/1751-7915.14025 pubmed: 35213794 pmcid: 9151342

Michielse CB, Pfannmüller A, Macios M, Rengers P, Dzikowska A, Tudzynski B (2014) The interplay between the GATA transcription factors AreA, the global nitrogen regulator and AreB in Fusarium fujikuroi. Mol Microbiol 91(3):472–493. https://doi.org/10.1111/mmi.12472

doi: 10.1111/mmi.12472 pubmed: 24286256

Mihlan M, Homann V, Liu TW, Tudzynski B (2003) AREA directly mediates nitrogen regulation of gibberellin biosynthesis in Gibberella fujikuroi, but its activity is not affected by NMR. Mol Microbiol 47(4):975–991. https://doi.org/10.1046/j.1365-2958.2003.03326.x

doi: 10.1046/j.1365-2958.2003.03326.x pubmed: 12581353

Misslinger M, Hortschansky P, Brakhage AA (1868) Haas H (2021) Fungal iron homeostasis with a focus on Aspergillus fumigatus. Biochim Biophys Acta Mol Cell Res 1:118885. https://doi.org/10.1016/j.bbamcr.2020.118885

doi: 10.1016/j.bbamcr.2020.118885

Mizutani O, Kudo Y, Saito A, Matsuura T, Inoue H, Abe K, Gomi K (2008) A defect of LigD (human Lig4 homolog) for nonhomologous end joining significantly improves efficiency of gene-targeting in Aspergillus oryzae. Fungal Genet Biol 45(6):878–889. https://doi.org/10.1016/j.fgb.2007.12.010

doi: 10.1016/j.fgb.2007.12.010 pubmed: 18282727

Morozov IY, Martinez MG, Jones MG, Caddick MX (2000) A defined sequence within the 3’ UTR of the areA transcript is sufficient to mediate nitrogen metabolite signalling via accelerated deadenylation. Mol Microbiol 37(5):1248–1257. https://doi.org/10.1046/j.1365-2958.2000.02085.x

doi: 10.1046/j.1365-2958.2000.02085.x pubmed: 10972840

Morozov IY, Galbis-Martinez M, Jones MG, Caddick MX (2001) Characterization of nitrogen metabolite signalling in Aspergillus via the regulated degradation of areA mRNA. Mol Microbiol 42(1):269–277. https://doi.org/10.1046/j.1365-2958.2001.02636.x

doi: 10.1046/j.1365-2958.2001.02636.x pubmed: 11679084

Muro-Pastor MI, Gonzalez R, Strauss J, Narendja F, Scazzocchio C (1999) The GATA factor AreA is essential for chromatin remodelling in a eukaryotic bidirectional promoter. Embo J 18(6):1584–1597. https://doi.org/10.1093/emboj/18.6.1584

doi: 10.1093/emboj/18.6.1584 pubmed: 10075929 pmcid: 1171246

Najjarzadeh N, Matsakas L, Rova U, Christakopoulos P (2021) How carbon source and degree of oligosaccharide polymerization affect production of cellulase-degrading enzymes by Fusarium oxysporum f. sp. lycopersici. Front Microbiol 12:652655. https://doi.org/10.3389/fmicb.2021.652655

doi: 10.3389/fmicb.2021.652655 pubmed: 33841380 pmcid: 8032549

Narendja F, Goller SP, Wolschek M, Strauss J (2002) Nitrate and the GATA factor AreA are necessary for in vivo binding of NirA, the pathway-specific transcriptional activator of Aspergillus nidulans. Mol Microbiol 44(2):573–583. https://doi.org/10.1046/j.1365-2958.2002.02911.x

doi: 10.1046/j.1365-2958.2002.02911.x pubmed: 11972792

Németh Z, Kulcsár L, Flipphi M, Orosz A, Aguilar-Pontes MV, de Vries RP, Karaffa L, Fekete E (2019) l-Arabinose induces d-galactose catabolism via the Leloir pathway in Aspergillus nidulans. Fungal Genet Biol 123:53–59. https://doi.org/10.1016/j.fgb.2018.11.004

doi: 10.1016/j.fgb.2018.11.004 pubmed: 30496805

Nguyen KM, Busino L (2020) The biology of F-box proteins: the SCF family of E3 ubiquitin ligases. Adv Exp Med Biol 1217:111–122. https://doi.org/10.1007/978-981-15-1025-0_8

doi: 10.1007/978-981-15-1025-0_8 pubmed: 31898225

Nitta M, Furukawa T, Shida Y, Mori K, Kuhara S, Morikawa Y, Ogasawara W (2012) A new Zn(II)(2)Cys(6)-type transcription factor BglR regulates β-glucosidase expression in Trichoderma reesei. Fungal Genet Biol 49(5):388–397. https://doi.org/10.1016/j.fgb.2012.02.009

doi: 10.1016/j.fgb.2012.02.009 pubmed: 22425594

Niu J, Alazi E, Reid ID, Arentshorst M, Punt PJ, Visser J, Tsang A, Ram AF (2017) An evolutionarily conserved transcriptional activator-repressor module controls expression of genes for D-galacturonic acid utilization in Aspergillus niger. Genetics 205(1):169–183. https://doi.org/10.1534/genetics.116.194050

doi: 10.1534/genetics.116.194050 pubmed: 28049705

Oestreicher N, Scazzocchio C, Suárez T (1997) Mutations in a dispensable region of the UaY transcription factor of Aspergillus nidulans differentially affect the expression of structural genes. Mol Microbiol 24(6):1189–1199. https://doi.org/10.1046/j.1365-2958.1997.4161790.x

doi: 10.1046/j.1365-2958.1997.4161790.x pubmed: 9218768

Ogawa M, Kobayashi T, Koyama Y (2012) ManR, a novel Zn(II)2Cys6 transcriptional activator, controls the β-mannan utilization system in Aspergillus oryzae. Fungal Genet Biol 49(12):987–995. https://doi.org/10.1016/j.fgb.2012.09.006

doi: 10.1016/j.fgb.2012.09.006 pubmed: 23063954

Ogawa M, Kobayashi T, Koyama Y (2013) ManR, a transcriptional regulator of the β-mannan utilization system, controls the cellulose utilization system in Aspergillus oryzae. Biosci Biotechnol Biochem 77(2):426–429. https://doi.org/10.1271/bbb.120795

doi: 10.1271/bbb.120795 pubmed: 23391935

Oh M, Son H, Choi GJ, Lee C, Kim JC, Kim H, Lee YW (2016) Transcription factor ART1 mediates starch hydrolysis and mycotoxin production in Fusarium graminearum and F. verticillioides. Mol Plant Pathol 17(5):755–68. https://doi.org/10.1111/mpp.12328

doi: 10.1111/mpp.12328 pubmed: 26456718

Olszewska A, Król K, Weglenski P, Dzikowska A (2007) Arginine catabolism in Aspergillus nidulans is regulated by the rrmA gene coding for the RNA-binding protein. Fungal Genet Biol 44(12):1285–1297. https://doi.org/10.1016/j.fgb.2007.07.001

doi: 10.1016/j.fgb.2007.07.001 pubmed: 17719249

Pan H, Feng B, Marzluf GA (1997) Two distinct protein-protein interactions between the NIT2 and NMR regulatory proteins are required to establish nitrogen metabolite repression in Neurospora crassa. Mol Microbiol 26(4):721–729. https://doi.org/10.1046/j.1365-2958.1997.6041979.x

doi: 10.1046/j.1365-2958.1997.6041979.x pubmed: 9427402

Pardo E, Orejas M (2014) The Aspergillus nidulans Zn(II)2Cys6 transcription factor AN5673/RhaR mediates L-rhamnose utilization and the production of alpha-L-rhamnosidases. Microb Cell Fact 13:161. https://doi.org/10.1186/s12934-014-0161-9

doi: 10.1186/s12934-014-0161-9 pubmed: 25416526 pmcid: 4245848

Persad R, Reuter DN, Dice LT, Nguyen MA, Rigoulot SB, Layton JS, Schmid MJ, Poindexter MR, Occhialini A, Stewart CN Jr, Lenaghan SC (2020) The Q-system as a synthetic transcriptional regulator in plants. Front Plant Sci 11:245. https://doi.org/10.3389/fpls.2020.00245

doi: 10.3389/fpls.2020.00245 pubmed: 32218793 pmcid: 7078239

Pfannmüller A, Boysen JM, Tudzynski B (2017a) Nitrate assimilation in Fusarium fujikuroi is controlled by multiple levels of regulation. Front Microbiol 8:381. https://doi.org/10.3389/fmicb.2017.00381

doi: 10.3389/fmicb.2017.00381 pubmed: 28352253 pmcid: 5348485

Pfannmüller A, Leufken J, Studt L, Michielse CB, Sieber CMK, Güldener U, Hawat S, Hippler M, Fufezan C, Tudzynski B (2017) Comparative transcriptome and proteome analysis reveals a global impact of the nitrogen regulators AreA and AreB on secondary metabolism in Fusarium fujikuroi. PLoS One 12(4):e0176194. https://doi.org/10.1371/journal.pone.0176194

doi: 10.1371/journal.pone.0176194 pubmed: 28441411 pmcid: 5404775

Platt A, Langdon T, Arst HN Jr, Kirk D, Tollervey D, Sanchez JM, Caddick MX (1996) Nitrogen metabolite signalling involves the C-terminus and the GATA domain of the Aspergillus transcription factor AREA and the 3’ untranslated region of its mRNA. Embo J 15(11):2791–2801

doi: 10.1002/j.1460-2075.1996.tb00639.x pubmed: 8654376 pmcid: 450215

Plumridge A, Melin P, Stratford M, Novodvorska M, Shunburne L, Dyer PS, Roubos JA, Menke H, Stark J, Stam H, Archer DB (2010) The decarboxylation of the weak-acid preservative, sorbic acid, is encoded by linked genes in Aspergillus spp. Fungal Genet Biol 47(8):683–692. https://doi.org/10.1016/j.fgb.2010.04.011

doi: 10.1016/j.fgb.2010.04.011 pubmed: 20452450

Pokorska A, Drevet C, Scazzocchio C (2000) The analysis of the transcriptional activator PrnA reveals a tripartite nuclear localisation sequence. J Mol Biol 298(4):585–596. https://doi.org/10.1006/jmbi.2000.3666

doi: 10.1006/jmbi.2000.3666 pubmed: 10788322

Potter CJ, Luo L (2011) Using the Q system in Drosophila melanogaster. Nat Protoc 6(8):1105–1120. https://doi.org/10.1038/nprot.2011.347

doi: 10.1038/nprot.2011.347 pubmed: 21738124 pmcid: 3982322

Punt PJ, Schuren FH, Lehmbeck J, Christensen T, Hjort C, van den Hondel CA (2008) Characterization of the Aspergillus niger prtT, a unique regulator of extracellular protease encoding genes. Fungal Genet Biol 45(12):1591–1599. https://doi.org/10.1016/j.fgb.2008.09.007

doi: 10.1016/j.fgb.2008.09.007 pubmed: 18930158

Rafiei V, Vélëz H, Tzelepis G (2021) The role of glycoside hydrolases in phytopathogenic fungi and oomycetes virulence. Int J Mol Sci 22(17) https://doi.org/10.3390/ijms22179359

Ralph J, Lapierre C, Boerjan W (2019) Lignin structure and its engineering. Curr Opin Biotechnol 56:240–249. https://doi.org/10.1016/j.copbio.2019.02.019

doi: 10.1016/j.copbio.2019.02.019 pubmed: 30921563

Raulo R, Kokolski M, Archer DB (2016) The roles of the zinc finger transcription factors XlnR, ClrA and ClrB in the breakdown of lignocellulose by Aspergillus niger. AMB Express 6(1):5. https://doi.org/10.1186/s13568-016-0177-0

doi: 10.1186/s13568-016-0177-0 pubmed: 26780227 pmcid: 4715039

Rauscher R, Wurleitner E, Wacenovsky C, Aro N, Stricker AR, Zeilinger S, Kubicek CP, Penttila M, Mach RL (2006) Transcriptional regulation of xyn1, encoding xylanase I. Hypocrea Jecorina Eukaryot Cell 5(3):447–456. https://doi.org/10.1128/ec.5.3.447-456.2006

doi: 10.1128/ec.5.3.447-456.2006 pubmed: 16524900

Reijngoud J, Deseke M, Halbesma ETM, Alazi E, Arentshorst M, Punt PJ, Ram AFJ (2019) Mutations in AraR leading to constitutive expression of arabinolytic genes in Aspergillus niger under derepressing conditions [corrected]. Appl Microbiol Biotechnol 103(10):4125–4136. https://doi.org/10.1007/s00253-019-09777-0

doi: 10.1007/s00253-019-09777-0 pubmed: 30963207 pmcid: 6486530

Reis RS, Litholdo CG Jr, Bally J, Roberts TH, Waterhouse PM (2018) A conditional silencing suppression system for transient expression. Sci Rep 8(1):9426. https://doi.org/10.1038/s41598-018-27778-3

doi: 10.1038/s41598-018-27778-3 pubmed: 29930292 pmcid: 6013485

Ribeiro LFC, Chelius C, Boppidi KR, Naik NS, Hossain S, Ramsey JJJ, Kumar J, Ribeiro LF, Ostermeier M, Tran B, Ah Goo Y, de Assis LJ, Ulas M, Bayram O, Goldman GH, Lincoln S, Srivastava R, Harris SD, Marten MR (2019) Comprehensive analysis of Aspergillus nidulans PKA phosphorylome identifies a novel mode of CreA regulation. mBio 10(2) https://doi.org/10.1128/mBio.02825-18

Ries LN, Beattie SR, Espeso EA, Cramer RA, Goldman GH (2016) Diverse regulation of the CreA carbon catabolite repressor in Aspergillus nidulans. Genetics 203(1):335–352. https://doi.org/10.1534/genetics.116.187872

doi: 10.1534/genetics.116.187872 pubmed: 27017621 pmcid: 4858783

Ries LNA, Beattie S, Cramer RA, Goldman GH (2018) Overview of carbon and nitrogen catabolite metabolism in the virulence of human pathogenic fungi. Mol Microbiol 107(3):277–297. https://doi.org/10.1111/mmi.13887

doi: 10.1111/mmi.13887 pubmed: 29197127

Ries LNA, Alves de Castro P, Pereira Silva L, Valero C, Dos Reis TF, Saborano R, Duarte IF, Persinoti GF, Steenwyk JL, Rokas A, Almeida F, Costa JH, Fill T, Sze Wah Wong S, Aimanianda V, Rodrigues FJS, Gonçales RA, Duarte-Oliveira C, Carvalho A, Goldman GH (2021) Aspergillus fumigatus acetate utilization impacts virulence traits and pathogenicity. mBio 12(4):e0168221. https://doi.org/10.1128/mBio.01682-21

doi: 10.1128/mBio.01682-21 pubmed: 34311583

Rocha AL, Di Pietro A, Ruiz-Roldán C, Roncero MI (2008) Ctf1, a transcriptional activator of cutinase and lipase genes in Fusarium oxysporum is dispensable for virulence. Mol Plant Pathol 9(3):293–304. https://doi.org/10.1111/j.1364-3703.2007.00463.x

doi: 10.1111/j.1364-3703.2007.00463.x pubmed: 18705871 pmcid: 6640520

Roche CM, Blanch HW, Clark DS, Glass NL (2013) Physiological role of Acyl coenzyme A synthetase homologs in lipid metabolism in Neurospora crassa. Eukaryot Cell 12(9):1244–1257. https://doi.org/10.1128/ec.00079-13

doi: 10.1128/ec.00079-13 pubmed: 23873861 pmcid: 3811560

Rongpipi S, Ye D, Gomez ED, Gomez EW (2018) Progress and opportunities in the characterization of cellulose-an important regulator of cell wall growth and mechanics. Front Plant Sci 9:1894. https://doi.org/10.3389/fpls.2018.01894

doi: 10.3389/fpls.2018.01894 pubmed: 30881371

Roy P, Lockington RA, Kelly JM (2008) CreA-mediated repression in Aspergillus nidulans does not require transcriptional auto-regulation, regulated intracellular localisation or degradation of CreA. Fungal Genet Biol 45(5):657–670. https://doi.org/10.1016/j.fgb.2007.10.016

doi: 10.1016/j.fgb.2007.10.016 pubmed: 18063396

Sakekar AA, Gaikwad SR, Punekar NS (2021) Protein expression and secretion by filamentous fungi. J Biosci 46(5). https://doi.org/10.1007/s12038-020-00120-8

Saloheimo A, Aro N, Ilmen M, Penttila M (2000) Isolation of the ace1 gene encoding a Cys(2)-His(2) transcription factor involved in regulation of activity of the cellulase promoter cbh1 of Trichoderma reesei. J Biol Chem 275(8):5817–5825

doi: 10.1074/jbc.275.8.5817 pubmed: 10681571

Samal A, Craig JP, Coradetti ST, Benz JP, Eddy JA, Price ND, Glass NL (2017) Network reconstruction and systems analysis of plant cell wall deconstruction by Neurospora crassa. Biotechnol Biofuels 10:225. https://doi.org/10.1186/s13068-017-0901-2

doi: 10.1186/s13068-017-0901-2 pubmed: 28947916 pmcid: 5609067

Scazzocchio C, Darlington AJ (1968) The induction and repression of the enzymes of purine breakdown in Aspergillus nidulans. Biochim Biophys Acta 166(2):557–568. https://doi.org/10.1016/0005-2787(68)90243-8

doi: 10.1016/0005-2787(68)90243-8 pubmed: 5680610

Schalamun M, Beier S, Hinterdobler W, Wanko N, Schinnerl J, Brecker L, Engl DE, Schmoll M (2023) MAPkinases regulate secondary metabolism, sexual development and light dependent cellulase regulation in Trichoderma reesei. Sci Rep 13(1):1912. https://doi.org/10.1038/s41598-023-28938-w

doi: 10.1038/s41598-023-28938-w pubmed: 36732590 pmcid: 9894936

Schmaler-Ripcke J, Sugareva V, Gebhardt P, Winkler R, Kniemeyer O, Heinekamp T, Brakhage AA (2009) Production of pyomelanin, a second type of melanin, via the tyrosine degradation pathway in Aspergillus fumigatus. Appl Environ Microbiol 75(2):493–503. https://doi.org/10.1128/aem.02077-08

doi: 10.1128/aem.02077-08 pubmed: 19028908

Schöbel F, Ibrahim-Granet O, Avé P, Latgé JP, Brakhage AA, Brock M (2007) Aspergillus fumigatus does not require fatty acid metabolism via isocitrate lyase for development of invasive aspergillosis. Infect Immun 75(3):1237–1244. https://doi.org/10.1128/iai.01416-06

doi: 10.1128/iai.01416-06 pubmed: 17178786

Schönig B, Brown DW, Oeser B, Tudzynski B (2008) Cross-species hybridization with Fusarium verticillioides microarrays reveals new insights into Fusarium fujikuroi nitrogen regulation and the role of AreA and NMR. Eukaryot Cell 7(10):1831–1846. https://doi.org/10.1128/ec.00130-08

doi: 10.1128/ec.00130-08 pubmed: 18689524 pmcid: 2568065

Shao Y, Zhang YH, Zhang F, Yang QM, Weng HF, Xiao Q, Xiao AF (2020) Thermostable tannase from Aspergillus niger and its application in the enzymatic extraction of green tea. Molecules 25(4) https://doi.org/10.3390/molecules25040952

Sharma KK, Arst HN Jr (1985) The product of the regulatory gene of the proline catabolism gene cluster of Aspergillus nidulans is a positive-acting protein. Curr Genet 9(4):299–304. https://doi.org/10.1007/bf00419959

doi: 10.1007/bf00419959 pubmed: 3916725

Sharon H, Hagag S, Osherov N (2009) Transcription factor PrtT controls expression of multiple secreted proteases in the human pathogenic mold Aspergillus fumigatus. Infect Immun 77(9):4051–4060. https://doi.org/10.1128/iai.00426-09

doi: 10.1128/iai.00426-09 pubmed: 19564385 pmcid: 2738002

Shemesh E, Hanf B, Hagag S, Attias S, Shadkchan Y, Fichtman B, Harel A, Krüger T, Brakhage AA, Kniemeyer O, Osherov N (2017) Phenotypic and proteomic analysis of the Aspergillus fumigatus ΔPrtT, ΔXprG and ΔXprG/ΔPrtT protease-deficient mutants. Front Microbiol 8:2490. https://doi.org/10.3389/fmicb.2017.02490

doi: 10.3389/fmicb.2017.02490 pubmed: 29312198 pmcid: 5732999

Shin Y, Chane A, Jung M, Lee Y (2021) Recent advances in understanding the roles of pectin as an active participant in plant signaling networks. Plants (Basel) 10(8) https://doi.org/10.3390/plants10081712

Shroff RA, O’Connor SM, Hynes MJ, Lockington RA, Kelly JM (1997) Null alleles of creA, the regulator of carbon catabolite repression in Aspergillus nidulans. Fungal Genet Biol 22(1):28–38. https://doi.org/10.1006/fgbi.1997.0989

doi: 10.1006/fgbi.1997.0989 pubmed: 9344629

Snyman C, Theron LW, Divol B (2019) Understanding the regulation of extracellular protease gene expression in fungi: a key step towards their biotechnological applications. Appl Microbiol Biotechnol 103(14):5517–5532. https://doi.org/10.1007/s00253-019-09902-z

doi: 10.1007/s00253-019-09902-z pubmed: 31129742

Strauss J, Mach RL, Zeilinger S, Hartler G, Stöffler G, Wolschek M, Kubicek CP (1995) Cre1, the carbon catabolite repressor protein from Trichoderma reesei. FEBS Lett 376(1–2):103–107. https://doi.org/10.1016/0014-5793(95)01255-5

doi: 10.1016/0014-5793(95)01255-5 pubmed: 8521952

Strauss J, Horvath HK, Abdallah BM, Kindermann J, Mach RL, Kubicek CP (1999) The function of CreA, the carbon catabolite repressor of Aspergillus nidulans, is regulated at the transcriptional and post-transcriptional level. Mol Microbiol 32(1):169–178. https://doi.org/10.1046/j.1365-2958.1999.01341.x

doi: 10.1046/j.1365-2958.1999.01341.x pubmed: 10216870

Stricker AR, Grosstessner-Hain K, Würleitner E, Mach RL (2006) Xyr1 (xylanase regulator 1) regulates both the hydrolytic enzyme system and D-xylose metabolism in Hypocrea jecorina. Eukaryot Cell 5(12):2128–2137. https://doi.org/10.1128/ec.00211-06

doi: 10.1128/ec.00211-06 pubmed: 17056741 pmcid: 1694815

Suárez T, Oestreicher N, Peñalva MA, Scazzocchio C (1991) Molecular cloning of the uaY regulatory gene of Aspergillus nidulans reveals a favoured region for DNA insertions. Mol Gen Genet 230(3):369–375. https://doi.org/10.1007/bf00280293

doi: 10.1007/bf00280293 pubmed: 1766435

Suárez T, de Queiroz MV, Oestreicher N, Scazzocchio C (1995) The sequence and binding specificity of UaY, the specific regulator of the purine utilization pathway in Aspergillus nidulans, suggest an evolutionary relationship with the PPR1 protein of Saccharomyces cerevisiae. Embo J 14(7):1453–1467. https://doi.org/10.1002/j.1460-2075.1995.tb07132.x

doi: 10.1002/j.1460-2075.1995.tb07132.x pubmed: 7729421 pmcid: 398233

Sugui JA, Kim HS, Zarember KA, Chang YC, Gallin JI, Nierman WC, Kwon-Chung KJ (2008) Genes differentially expressed in conidia and hyphae of Aspergillus fumigatus upon exposure to human neutrophils. PLoS One 3(7):e2655. https://doi.org/10.1371/journal.pone.0002655

doi: 10.1371/journal.pone.0002655 pubmed: 18648542 pmcid: 2481287

Sun J, Glass NL (2011) Identification of the CRE-1 cellulolytic regulon in Neurospora crassa. PLoS One 6(9):e25654

doi: 10.1371/journal.pone.0025654 pubmed: 21980519 pmcid: 3183063

Sun J, Tian C, Diamond S, Glass NL (2012) Deciphering transcriptional regulatory mechanisms associated with hemicellulose degradation in Neurospora crassa. Eukaryot Cell 11(4):482–493

doi: 10.1128/EC.05327-11 pubmed: 22345350 pmcid: 3318299

Suzuki K, Tanaka M, Konno Y, Ichikawa T, Ichinose S, Hasegawa-Shiro S, Shintani T, Gomi K (2015) Distinct mechanism of activation of two transcription factors, AmyR and MalR, involved in amylolytic enzyme production in Aspergillus oryzae. Appl Microbiol Biotechnol 99(4):1805–1815. https://doi.org/10.1007/s00253-014-6264-8

doi: 10.1007/s00253-014-6264-8 pubmed: 25487891

Talbot N, McCafferty H, Ma M, Moore K, Hamer J (1997) Nitrogen starvation of the rice blast fungus Magnaporthe grisea may act as an environmental cue for disease symptom expression. Physiol Mol Plant Pathol 50(3):179–195

doi: 10.1006/pmpp.1997.0081

Tanaka M, Ito K, Matsuura T, Kawarasaki Y, Gomi K (2021) Identification and distinct regulation of three di/tripeptide transporters in Aspergillus oryzae. Biosci Biotechnol Biochem 85(2):452–463. https://doi.org/10.1093/bbb/zbaa030

doi: 10.1093/bbb/zbaa030 pubmed: 33604648

Tang X, Dong W, Griffith J, Nilsen R, Matthes A, Cheng KB, Reeves J, Schuttler HB, Case ME, Arnold J, Logan DA (2011) Systems biology of the qa gene cluster in Neurospora crassa. PLoS One 6(6):e20671. https://doi.org/10.1371/journal.pone.0020671

doi: 10.1371/journal.pone.0020671 pubmed: 21695121 pmcid: 3114802

Tani S, Katsuyama Y, Hayashi T, Suzuki H, Kato M, Gomi K, Kobayashi T, Tsukagoshi N (2001) Characterization of the amyR gene encoding a transcriptional activator for the amylase genes in Aspergillus nidulans. Curr Genet 39(1):10–15

doi: 10.1007/s002940000175 pubmed: 11318101

Tao Y, Marzluf GA (1999) The NIT2 nitrogen regulatory protein of Neurospora: expression and stability of nit-2 mRNA and protein. Curr Genet 36(3):153–158. https://doi.org/10.1007/s002940050485

doi: 10.1007/s002940050485 pubmed: 10501938

Terrett OM, Dupree P (2019) Covalent interactions between lignin and hemicelluloses in plant secondary cell walls. Curr Opin Biotechnol 56:97–104. https://doi.org/10.1016/j.copbio.2018.10.010

doi: 10.1016/j.copbio.2018.10.010 pubmed: 30423528

Thieme N, Wu VW, Dietschmann A, Salamov AA, Wang M, Johnson J, Singan VR, Grigoriev IV, Glass NL, Somerville CR, Benz JP (2017) The transcription factor PDR-1 is a multi-functional regulator and key component of pectin deconstruction and catabolism in Neurospora crassa. Biotechnol Biofuels 10:149. https://doi.org/10.1186/s13068-017-0807-z

doi: 10.1186/s13068-017-0807-z pubmed: 28616073 pmcid: 5469009

Todd RB, Murphy RL, Martin HM, Sharp JA, Davis MA, Katz ME, Hynes MJ (1997) The acetate regulatory gene facB of Aspergillus nidulans encodes a Zn(II)2Cys6 transcriptional activator. Mol Gen Genet 254(5):495–504. https://doi.org/10.1007/s004380050444

doi: 10.1007/s004380050444 pubmed: 9197408

Todd RB, Lockington RA, Kelly JM (2000) The Aspergillus nidulans creC gene involved in carbon catabolite repression encodes a WD40 repeat protein. Mol Gen Genet 263(4):561–570. https://doi.org/10.1007/s004380051202

doi: 10.1007/s004380051202 pubmed: 10852476

Todd RB, Fraser JA, Wong KH, Davis MA, Hynes MJ (2005) Nuclear accumulation of the GATA factor AreA in response to complete nitrogen starvation by regulation of nuclear export. Eukaryot Cell 4(10):1646–1653. https://doi.org/10.1128/ec.4.10.1646-1653.2005

doi: 10.1128/ec.4.10.1646-1653.2005 pubmed: 16215172 pmcid: 1265900

Todd RB, Zhou M, Ohm RA, Leeggangers HA, Visser L, de Vries RP (2014) Prevalence of transcription factors in ascomycete and basidiomycete fungi. BMC Genomics 15:214. https://doi.org/10.1186/1471-2164-15-214

doi: 10.1186/1471-2164-15-214 pubmed: 24650355 pmcid: 3998117

Tong Z, He W, Fan X, Guo A (2021) Biological function of plant tannin and its application in animal health. Front Vet Sci 8:803657. https://doi.org/10.3389/fvets.2021.803657

doi: 10.3389/fvets.2021.803657 pubmed: 35083309

Tonukari NJ, Scott-Craig JS, Walton JD (2000) The Cochliobolus carbonum SNF1 gene is required for cell wall-degrading enzyme expression and virulence on maize. Plant Cell 12(2):237–248. https://doi.org/10.1105/tpc.12.2.237

doi: 10.1105/tpc.12.2.237 pubmed: 10662860 pmcid: 139761

Treitel MA, Kuchin S, Carlson M (1998) Snf1 protein kinase regulates phosphorylation of the Mig1 repressor in Saccharomyces cerevisiae. Mol Cell Biol 18(11):6273–6280

doi: 10.1128/MCB.18.11.6273 pubmed: 9774644 pmcid: 109214

Tudzynski B (2014) Nitrogen regulation of fungal secondary metabolism in fungi. Front Microbiol 5:656. https://doi.org/10.3389/fmicb.2014.00656

doi: 10.3389/fmicb.2014.00656 pubmed: 25506342 pmcid: 4246892

Tudzynski B, Homann V, Feng B, Marzluf GA (1999) Isolation, characterization and disruption of the areA nitrogen regulatory gene of Gibberella fujikuroi. Mol Gen Genet 261(1):106–114. https://doi.org/10.1007/s004380050947

doi: 10.1007/s004380050947 pubmed: 10071216

van Peij NN, Gielkens MM, de Vries RP, Visser J, de Graaff LH (1998a) The transcriptional activator XlnR regulates both xylanolytic and endoglucanase gene expression in Aspergillus niger. Appl Environ Microbiol 64(10):3615–3619

doi: 10.1128/AEM.64.10.3615-3619.1998 pubmed: 9758775 pmcid: 106473

van Peij NN, Visser J, de Graaff LH (1998b) Isolation and analysis of xlnR, encoding a transcriptional activator co-ordinating xylanolytic expression in Aspergillus niger. Mol Microbiol 27(1):131–142

doi: 10.1046/j.1365-2958.1998.00666.x pubmed: 9466262

Vautard-Mey G, Fèvre M (2000) Mutation of a putative AMPK phosphorylation site abolishes the repressor activity but not the nuclear targeting of the fungal glucose regulator CRE1. Curr Genet 37(5):328–332. https://doi.org/10.1007/s002940050535

doi: 10.1007/s002940050535 pubmed: 10853770

Wang M, Zhao Q, Yang J, Jiang B, Wang F, Liu K, Fang X (2013) A mitogen-activated protein kinase Tmk3 participates in high osmolarity resistance, cell wall integrity maintenance and cellulase production regulation in Trichoderma reesei. PLoS One 8(8):e72189. https://doi.org/10.1371/journal.pone.0072189

doi: 10.1371/journal.pone.0072189 pubmed: 23991059 pmcid: 3753334

Wang J, Wu Y, Gong Y, Yu S, Liu G (2015) Enhancing xylanase production in the thermophilic fungus Myceliophthora thermophila by homologous overexpression of Mtxyr1. J Ind Microbiol Biotechnol 42(9):1233–1241. https://doi.org/10.1007/s10295-015-1628-3

doi: 10.1007/s10295-015-1628-3 pubmed: 26173497

Wang L, Zhang W, Cao Y, Zheng F, Zhao G, Lv X, Meng X, Liu W (2021) Interdependent recruitment of CYC8/TUP1 and the transcriptional activator XYR1 at target promoters is required for induced cellulase gene expression in Trichoderma reesei. PLoS Genet 17(2):e1009351. https://doi.org/10.1371/journal.pgen.1009351

doi: 10.1371/journal.pgen.1009351 pubmed: 33606681 pmcid: 7894907

Whittington HA, Grant S, Roberts CF, Lamb H, Hawkins AR (1987) Identification and isolation of a putative permease gene in the quinic acid utilization (QUT) gene cluster of Aspergillus nidulans. Curr Genet 12(2):135–139. https://doi.org/10.1007/bf00434668

doi: 10.1007/bf00434668 pubmed: 2835177

Wilson RA, Gibson RP, Quispe CF, Littlechild JA, Talbot NJ (2010) An NADPH-dependent genetic switch regulates plant infection by the rice blast fungus. Proc Natl Acad Sci U S A 107(50):21902–21907. https://doi.org/10.1073/pnas.1006839107

doi: 10.1073/pnas.1006839107 pubmed: 21115813 pmcid: 3003025

Wong KH, Hynes MJ, Todd RB, Davis MA (2007) Transcriptional control of nmrA by the bZIP transcription factor MeaB reveals a new level of nitrogen regulation in Aspergillus nidulans. Mol Microbiol 66(2):534–551. https://doi.org/10.1111/j.1365-2958.2007.05940.x

doi: 10.1111/j.1365-2958.2007.05940.x pubmed: 17854403

Wong KH, Hynes MJ, Todd RB, Davis MA (2009) Deletion and overexpression of the Aspergillus nidulans GATA factor AreB reveals unexpected pleiotropy. Microbiology (reading) 155(Pt 12):3868–3880. https://doi.org/10.1099/mic.0.031252-0

doi: 10.1099/mic.0.031252-0 pubmed: 19628561

Wu VW, Thieme N, Huberman LB, Dietschmann A, Kowbel DJ, Lee J, Calhoun S, Singan VR, Lipzen A, Xiong Y, Monti R, Blow MJ, O’Malley RC, Grigoriev IV, Benz JP, Glass NL (2020) The regulatory and transcriptional landscape associated with carbon utilization in a filamentous fungus. Proc Natl Acad Sci U S A 117(11):6003–6013. https://doi.org/10.1073/pnas.1915611117

doi: 10.1073/pnas.1915611117 pubmed: 32111691 pmcid: 7084071

Xiang Q, Glass NL (2002) Identification of vib-1, a locus involved in vegetative incompatibility mediated by het-c in Neurospora crassa. Genetics 162(1):89–101. https://doi.org/10.1093/genetics/162.1.89

doi: 10.1093/genetics/162.1.89 pubmed: 12242225 pmcid: 1462268

Xiao X, Fu YH, Marzluf GA (1995) The negative-acting NMR regulatory protein of Neurospora crassa binds to and inhibits the DNA-binding activity of the positive-acting nitrogen regulatory protein NIT2. Biochemistry 34(27):8861–8868. https://doi.org/10.1021/bi00027a038

doi: 10.1021/bi00027a038 pubmed: 7612627

Xiong Y, Sun J, Glass NL (2014) VIB1, a link between glucose signaling and carbon catabolite repression, is essential for plant cell wall degradation by Neurospora crassa. PLoS Genet 10(8):e1004500. https://doi.org/10.1371/journal.pgen.1004500

doi: 10.1371/journal.pgen.1004500 pubmed: 25144221 pmcid: 4140635

Xiong Y, Wu VW, Lubbe A, Qin L, Deng S, Kennedy M, Bauer D, Singan VR, Barry K, Northen TR, Grigoriev IV, Glass NL (2017) A fungal transcription factor essential for starch degradation affects integration of carbon and nitrogen metabolism. PLoS Genet 13(5):e1006737. https://doi.org/10.1371/journal.pgen.1006737

doi: 10.1371/journal.pgen.1006737 pubmed: 28467421 pmcid: 5435353

Yan YS, Zhao S, Liao LS, He QP, Xiong YR, Wang L, Li CX, Feng JX (2017) Transcriptomic profiling and genetic analyses reveal novel key regulators of cellulase and xylanase gene expression in Penicillium oxalicum. Biotechnol Biofuels 10:279. https://doi.org/10.1186/s13068-017-0966-y

doi: 10.1186/s13068-017-0966-y pubmed: 29201143 pmcid: 5700522

Yi M, Park JH, Ahn JH, Lee YH (2008) MoSNF1 regulates sporulation and pathogenicity in the rice blast fungus Magnaporthe oryzae. Fungal Genet Biol 45(8):1172–1181. https://doi.org/10.1016/j.fgb.2008.05.003

doi: 10.1016/j.fgb.2008.05.003 pubmed: 18595748

Young JL, Jarai G, Fu YH, Marzluf GA (1990) Nucleotide sequence and analysis of NMR, a negative-acting regulatory gene in the nitrogen circuit of Neurospora crassa. Mol Gen Genet 222(1):120–128. https://doi.org/10.1007/bf00283032

doi: 10.1007/bf00283032 pubmed: 2146484

Yu J, Son H, Park AR, Lee SH, Choi GJ, Kim JC, Lee YW (2014) Functional characterization of sucrose non-fermenting 1 protein kinase complex genes in the Ascomycete Fusarium graminearum. Curr Genet 60(1):35–47. https://doi.org/10.1007/s00294-013-0409-7

doi: 10.1007/s00294-013-0409-7 pubmed: 24057127

Yuan GF, Fu YH, Marzluf GA (1991) nit-4, a pathway-specific regulatory gene of Neurospora crassa, encodes a protein with a putative binuclear zinc DNA-binding domain. Mol Cell Biol 11(11):5735–5745. https://doi.org/10.1128/mcb.11.11.5735

doi: 10.1128/mcb.11.11.5735 pubmed: 1840634 pmcid: 361945

Yuan XL, Roubos JA, van den Hondel CA, Ram AF (2008) Identification of InuR, a new Zn(II)2Cys6 transcriptional activator involved in the regulation of inulinolytic genes in Aspergillus niger. Mol Genet Genomics 279(1):11–26. https://doi.org/10.1007/s00438-007-0290-5

doi: 10.1007/s00438-007-0290-5 pubmed: 17917744

Zhang L, Lubbers RJ, Simon A, Stassen JH, Vargas Ribera PR, Viaud M, van Kan JA (2016) A novel Zn2 Cys6 transcription factor BcGaaR regulates D-galacturonic acid utilization in Botrytis cinerea. Mol Microbiol 100(2):247–262. https://doi.org/10.1111/mmi.13314

doi: 10.1111/mmi.13314 pubmed: 26691528

Zhang B, Gao Y, Zhang L, Zhou Y (2021a) The plant cell wall: biosynthesis, construction, and functions. J Integr Plant Biol 63(1):251–272. https://doi.org/10.1111/jipb.13055

doi: 10.1111/jipb.13055 pubmed: 33325153

Zhang W, Qin W, Li H, Wu AM (2021) Biosynthesis and transport of nucleotide sugars for plant hemicellulose. Front Plant Sci 12:723128. https://doi.org/10.3389/fpls.2021.723128

doi: 10.3389/fpls.2021.723128 pubmed: 34868108 pmcid: 8636097

Zhang C, Li N, Rao L, Li J, Liu Q, Tian C (2022) Development of an efficient C-to-T base-editing system and its application to cellulase transcription factor precise engineering in thermophilic fungus Myceliophthora thermophila. Microbiol Spectr 10(3):e0232121. https://doi.org/10.1128/spectrum.02321-21

doi: 10.1128/spectrum.02321-21 pubmed: 35608343

Zhao X, Hume SL, Johnson C, Thompson P, Huang J, Gray J, Lamb HK, Hawkins AR (2010) The transcription repressor NmrA is subject to proteolysis by three Aspergillus nidulans proteases. Protein Sci 19(7):1405–1419. https://doi.org/10.1002/pro.421

doi: 10.1002/pro.421 pubmed: 20506376 pmcid: 2974832

Zheng F, Cao Y, Yang R, Wang L, Lv X, Zhang W, Meng X, Liu W (2020) Trichoderma reesei XYR1 activates cellulase gene expression via interaction with the Mediator subunit TrGAL11 to recruit RNA polymerase II. PLoS Genet 16(9):e1008979. https://doi.org/10.1371/journal.pgen.1008979

doi: 10.1371/journal.pgen.1008979 pubmed: 32877410 pmcid: 7467262

Ziv C, Gorovits R, Yarden O (2008) Carbon source affects PKA-dependent polarity of Neurospora crassa in a CRE-1-dependent and independent manner. Fungal Genet Biol 45(2):103–116. https://doi.org/10.1016/j.fgb.2007.05.005

doi: 10.1016/j.fgb.2007.05.005 pubmed: 17625933

Znameroski EA, Coradetti ST, Roche CM, Tsai JC, Iavarone AT, Cate JH, Glass NL (2012) Induction of lignocellulose-degrading enzymes in Neurospora crassa by cellodextrins. Proc Natl Acad Sci U S A 109(16):6012–6017. https://doi.org/10.1073/pnas.1118440109

doi: 10.1073/pnas.1118440109 pubmed: 22474347 pmcid: 3341005

Regulation of nutrient utilization in filamentous fungi.

Journal

Informations de publication

Résumé

Identifiants

Substances chimiques

Types de publication

Langues

Sous-ensembles de citation

Pagination

Subventions

Informations de copyright

Références

Auteurs

Joshua D Kerkaert (JD)

Lori B Huberman (LB)

Articles similaires

Planting density effect on poplar growth traits and soil nutrient availability, and response of microbial community, assembly and function.

Enhancing strawberry resilience to saline, alkaline, and combined stresses with light spectra: impacts on growth, enzymatic activity, nutrient uptake, and osmotic regulation.

Menthol as an effective inhibitor of quorum sensing and biofilm formation in Candida albicans and Candida glabrata by targeting the transcriptional repressor TUP1.

Environmental impact assessment of Flora and its role in offsetting carbon along National Highway-16, India.

Classifications MeSH