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Items: 1 to 50 of 121

1.

Correction to: Mutations in AraR leading to constitutive expression of arabinolytic genes in Aspergillus niger under derepressing conditions.

Reijngoud J, Deseke M, Halbesma ETM, Alazi E, Arentshorst M, Punt PJ, Ram AFJ.

Appl Microbiol Biotechnol. 2019 Jun;103(12):5063. doi: 10.1007/s00253-019-09853-5.

PMID:
31053914
2.

Mutations in AraR leading to constitutive expression of arabinolytic genes in Aspergillus niger under derepressing conditions [corrected].

Reijngoud J, Deseke M, Halbesma ETM, Alazi E, Arentshorst M, Punt PJ, Ram AFJ.

Appl Microbiol Biotechnol. 2019 May;103(10):4125-4136. doi: 10.1007/s00253-019-09777-0. Epub 2019 Apr 8. Erratum in: Appl Microbiol Biotechnol. 2019 May 3;:.

3.

FlbA-Regulated Gene rpnR Is Involved in Stress Resistance and Impacts Protein Secretion when Aspergillus niger Is Grown on Xylose.

Aerts D, van den Bergh SG, Post H, Altelaar MAF, Arentshorst M, Ram AFJ, Ohm RA, Wösten HAB.

Appl Environ Microbiol. 2019 Jan 9;85(2). pii: e02282-18. doi: 10.1128/AEM.02282-18. Print 2019 Jan 15.

PMID:
30413474
4.

Modulating Transcriptional Regulation of Plant Biomass Degrading Enzyme Networks for Rational Design of Industrial Fungal Strains.

Alazi E, Ram AFJ.

Front Bioeng Biotechnol. 2018 Sep 25;6:133. doi: 10.3389/fbioe.2018.00133. eCollection 2018. Review.

5.

W361R mutation in GaaR, the regulator of D-galacturonic acid-responsive genes, leads to constitutive production of pectinases in Aspergillus niger.

Alazi E, Niu J, Otto SB, Arentshorst M, Pham TTM, Tsang A, Ram AFJ.

Microbiologyopen. 2019 May;8(5):e00732. doi: 10.1002/mbo3.732. Epub 2018 Oct 8.

6.

A community-driven reconstruction of the Aspergillus niger metabolic network.

Brandl J, Aguilar-Pontes MV, Schäpe P, Noerregaard A, Arvas M, Ram AFJ, Meyer V, Tsang A, de Vries RP, Andersen MR.

Fungal Biol Biotechnol. 2018 Sep 26;5:16. doi: 10.1186/s40694-018-0060-7. eCollection 2018.

7.

Correction: Velvet domain protein VosA represses the zinc cluster transcription factor SclB regulatory network for Aspergillus nidulans asexual development, oxidative stress response and secondary metabolism.

Thieme KG, Gerke J, Sasse C, Valerius O, Thieme S, Karimi R, Heinrich AK, Finkernagel F, Smith K, Bode HB, Freitag M, Ram AFJ, Braus GH.

PLoS Genet. 2018 Aug 29;14(8):e1007638. doi: 10.1371/journal.pgen.1007638. eCollection 2018 Aug.

8.

Velvet domain protein VosA represses the zinc cluster transcription factor SclB regulatory network for Aspergillus nidulans asexual development, oxidative stress response and secondary metabolism.

Thieme KG, Gerke J, Sasse C, Valerius O, Thieme S, Karimi R, Heinrich AK, Finkernagel F, Smith K, Bode HB, Freitag M, Ram AFJ, Braus GH.

PLoS Genet. 2018 Jul 25;14(7):e1007511. doi: 10.1371/journal.pgen.1007511. eCollection 2018 Jul. Erratum in: PLoS Genet. 2018 Aug 29;14(8):e1007638.

9.

Parasexual Crossings for Bulk Segregant Analysis in Aspergillus niger to Facilitate Mutant Identification Via Whole Genome Sequencing.

Arentshorst M, Ram AFJ.

Methods Mol Biol. 2018;1775:277-287. doi: 10.1007/978-1-4939-7804-5_22.

PMID:
29876825
10.

Inducer-independent production of pectinases in Aspergillus niger by overexpression of the D-galacturonic acid-responsive transcription factor gaaR.

Alazi E, Knetsch T, Di Falco M, Reid ID, Arentshorst M, Visser J, Tsang A, Ram AFJ.

Appl Microbiol Biotechnol. 2018 Mar;102(6):2723-2736. doi: 10.1007/s00253-018-8753-7. Epub 2018 Jan 24.

11.

The FlbA-regulated predicted transcription factor Fum21 of Aspergillus niger is involved in fumonisin production.

Aerts D, Hauer EE, Ohm RA, Arentshorst M, Teertstra WR, Phippen C, Ram AFJ, Frisvad JC, Wösten HAB.

Antonie Van Leeuwenhoek. 2018 Mar;111(3):311-322. doi: 10.1007/s10482-017-0952-1. Epub 2017 Sep 30.

12.

Current challenges of research on filamentous fungi in relation to human welfare and a sustainable bio-economy: a white paper.

Meyer V, Andersen MR, Brakhage AA, Braus GH, Caddick MX, Cairns TC, de Vries RP, Haarmann T, Hansen K, Hertz-Fowler C, Krappmann S, Mortensen UH, Peñalva MA, Ram AFJ, Head RM.

Fungal Biol Biotechnol. 2016 Aug 31;3:6. doi: 10.1186/s40694-016-0024-8. eCollection 2016.

13.

The pathway intermediate 2-keto-3-deoxy-L-galactonate mediates the induction of genes involved in D-galacturonic acid utilization in Aspergillus niger.

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.

FEBS Lett. 2017 May;591(10):1408-1418. doi: 10.1002/1873-3468.12654. Epub 2017 May 6.

14.

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus.

de Vries RP, Riley R, Wiebenga A, Aguilar-Osorio G, Amillis S, Uchima CA, Anderluh G, Asadollahi M, Askin M, Barry K, Battaglia E, Bayram Ö, Benocci T, Braus-Stromeyer SA, Caldana C, Cánovas D, Cerqueira GC, Chen F, Chen W, Choi C, Clum A, Dos Santos RA, Damásio AR, Diallinas G, Emri T, Fekete E, Flipphi M, Freyberg S, Gallo A, Gournas C, Habgood R, Hainaut M, Harispe ML, Henrissat B, Hildén KS, Hope R, Hossain A, Karabika E, Karaffa L, Karányi Z, Kraševec N, Kuo A, Kusch H, LaButti K, Lagendijk EL, Lapidus A, Levasseur A, Lindquist E, Lipzen A, Logrieco AF, MacCabe A, Mäkelä MR, Malavazi I, Melin P, Meyer V, Mielnichuk N, Miskei M, Molnár ÁP, Mulé G, Ngan CY, Orejas M, Orosz E, Ouedraogo JP, Overkamp KM, Park HS, Perrone G, Piumi F, Punt PJ, Ram AF, Ramón A, Rauscher S, Record E, Riaño-Pachón DM, Robert V, Röhrig J, Ruller R, Salamov A, Salih NS, Samson RA, Sándor E, Sanguinetti M, Schütze T, Sepčić K, Shelest E, Sherlock G, Sophianopoulou V, Squina FM, Sun H, Susca A, Todd RB, Tsang A, Unkles SE, van de Wiele N, van Rossen-Uffink D, Oliveira JV, Vesth TC, Visser J, Yu JH, Zhou M, Andersen MR, Archer DB, Baker SE, Benoit I, Brakhage AA, Braus GH, Fischer R, Frisvad JC, Goldman GH, Houbraken J, Oakley B, Pócsi I, Scazzocchio C, Seiboth B, vanKuyk PA, Wortman J, Dyer PS, Grigoriev IV.

Genome Biol. 2017 Feb 14;18(1):28. doi: 10.1186/s13059-017-1151-0.

15.

An Evolutionarily Conserved Transcriptional Activator-Repressor Module Controls Expression of Genes for D-Galacturonic Acid Utilization in Aspergillus niger.

Niu J, Alazi E, Reid ID, Arentshorst M, Punt PJ, Visser J, Tsang A, Ram AF.

Genetics. 2017 Jan;205(1):169-183. doi: 10.1534/genetics.116.194050. Epub 2016 Nov 9.

16.

A Transcriptome Meta-Analysis Proposes Novel Biological Roles for the Antifungal Protein AnAFP in Aspergillus niger.

Paege N, Jung S, Schäpe P, Müller-Hagen D, Ouedraogo JP, Heiderich C, Jedamzick J, Nitsche BM, van den Hondel CA, Ram AF, Meyer V.

PLoS One. 2016 Nov 11;11(11):e0165755. doi: 10.1371/journal.pone.0165755. eCollection 2016.

17.

Highly active promoters and native secretion signals for protein production during extremely low growth rates in Aspergillus niger.

Wanka F, Arentshorst M, Cairns TC, Jørgensen T, Ram AF, Meyer V.

Microb Cell Fact. 2016 Aug 20;15(1):145. doi: 10.1186/s12934-016-0543-2.

18.

Aspergillus fumigatus MADS-Box Transcription Factor rlmA Is Required for Regulation of the Cell Wall Integrity and Virulence.

Rocha MC, Fabri JH, Franco de Godoy K, Alves de Castro P, Hori JI, Ferreira da Cunha A, Arentshorst M, Ram AF, van den Hondel CA, Goldman GH, Malavazi I.

G3 (Bethesda). 2016 Sep 8;6(9):2983-3002. doi: 10.1534/g3.116.031112.

19.

The unconventional secretion of PepN is independent of a functional autophagy machinery in the filamentous fungus Aspergillus niger.

Burggraaf AM, Punt PJ, Ram AF.

FEMS Microbiol Lett. 2016 Aug;363(15). pii: fnw152. doi: 10.1093/femsle/fnw152. Epub 2016 Jun 8.

PMID:
27284019
20.

Transcriptomic and molecular genetic analysis of the cell wall salvage response of Aspergillus niger to the absence of galactofuranose synthesis.

Park J, Hulsman M, Arentshorst M, Breeman M, Alazi E, Lagendijk EL, Rocha MC, Malavazi I, Nitsche BM, van den Hondel CA, Meyer V, Ram AF.

Cell Microbiol. 2016 Sep;18(9):1268-84. doi: 10.1111/cmi.12624. Epub 2016 Jul 29.

21.

A set of isogenic auxotrophic strains for constructing multiple gene deletion mutants and parasexual crossings in Aspergillus niger.

Niu J, Arentshorst M, Seelinger F, Ram AF, Ouedraogo JP.

Arch Microbiol. 2016 Nov;198(9):861-8. doi: 10.1007/s00203-016-1240-6. Epub 2016 Jun 1.

22.

The transcriptional activator GaaR of Aspergillus niger is required for release and utilization of d-galacturonic acid from pectin.

Alazi E, Niu J, Kowalczyk JE, Peng M, Aguilar Pontes MV, van Kan JA, Visser J, de Vries RP, Ram AF.

FEBS Lett. 2016 Jun;590(12):1804-15. doi: 10.1002/1873-3468.12211. Epub 2016 May 30.

23.

Autophagy is dispensable to overcome ER stress in the filamentous fungus Aspergillus niger.

Burggraaf AM, Ram AF.

Microbiologyopen. 2016 Aug;5(4):647-58. doi: 10.1002/mbo3.359. Epub 2016 Mar 29.

24.

An inducible tool for random mutagenesis in Aspergillus niger based on the transposon Vader.

Paun L, Nitsche B, Homan T, Ram AF, Kempken F.

Appl Microbiol Biotechnol. 2016 Jul;100(14):6309-17. doi: 10.1007/s00253-016-7438-3. Epub 2016 Mar 22.

PMID:
27003267
25.

Improving cellulase production by Aspergillus niger using adaptive evolution.

Patyshakuliyeva A, Arentshorst M, Allijn IE, Ram AF, de Vries RP, Gelber IB.

Biotechnol Lett. 2016 Jun;38(6):969-74. doi: 10.1007/s10529-016-2060-0. Epub 2016 Feb 15.

26.

Characterizing MttA as a mitochondrial cis-aconitic acid transporter by metabolic engineering.

Steiger MG, Punt PJ, Ram AFJ, Mattanovich D, Sauer M.

Metab Eng. 2016 May;35:95-104. doi: 10.1016/j.ymben.2016.02.003. Epub 2016 Feb 10.

PMID:
26875555
27.

I-SceI enzyme mediated integration (SEMI) for fast and efficient gene targeting in Trichoderma reesei.

Ouedraogo JP, Arentshorst M, Nikolaev I, Barends S, Ram AF.

J Biotechnol. 2016 Mar 20;222:25-8. doi: 10.1016/j.jbiotec.2016.02.012. Epub 2016 Feb 6.

28.

Identification of a Classical Mutant in the Industrial Host Aspergillus niger by Systems Genetics: LaeA Is Required for Citric Acid Production and Regulates the Formation of Some Secondary Metabolites.

Niu J, Arentshorst M, Nair PD, Dai Z, Baker SE, Frisvad JC, Nielsen KF, Punt PJ, Ram AF.

G3 (Bethesda). 2015 Nov 13;6(1):193-204. doi: 10.1534/g3.115.024067.

29.

Identification and functional analysis of two Golgi-localized UDP-galactofuranose transporters with overlapping functions in Aspergillus niger.

Park J, Tefsen B, Heemskerk MJ, Lagendijk EL, van den Hondel CA, van Die I, Ram AF.

BMC Microbiol. 2015 Nov 2;15:253. doi: 10.1186/s12866-015-0541-2.

30.

I-SceI-mediated double-strand DNA breaks stimulate efficient gene targeting in the industrial fungus Trichoderma reesei.

Ouedraogo JP, Arentshorst M, Nikolaev I, Barends S, Ram AF.

Appl Microbiol Biotechnol. 2015 Dec;99(23):10083-95. doi: 10.1007/s00253-015-6829-1. Epub 2015 Aug 15.

31.

The interaction of induction and repression mechanisms in the regulation of galacturonic acid-induced genes in Aspergillus niger.

Niu J, Homan TG, Arentshorst M, de Vries RP, Visser J, Ram AF.

Fungal Genet Biol. 2015 Sep;82:32-42. doi: 10.1016/j.fgb.2015.06.006. Epub 2015 Jun 27.

PMID:
26127014
32.

Physiological and Transcriptional Responses of Different Industrial Microbes at Near-Zero Specific Growth Rates.

Ercan O, Bisschops MM, Overkamp W, Jørgensen TR, Ram AF, Smid EJ, Pronk JT, Kuipers OP, Daran-Lapujade P, Kleerebezem M.

Appl Environ Microbiol. 2015 Sep 1;81(17):5662-70. doi: 10.1128/AEM.00944-15. Epub 2015 Jun 5. Review.

33.

Expanding the chemical space for natural products by Aspergillus-Streptomyces co-cultivation and biotransformation.

Wu C, Zacchetti B, Ram AF, van Wezel GP, Claessen D, Hae Choi Y.

Sci Rep. 2015 Jun 4;5:10868. doi: 10.1038/srep10868.

34.

A new vector for efficient gene targeting to the pyrG locus in Aspergillus niger.

Arentshorst M, Lagendijk EL, Ram AF.

Fungal Biol Biotechnol. 2015 Mar 14;2:2. doi: 10.1186/s40694-015-0012-4. eCollection 2015.

35.

Systems approaches to predict the functions of glycoside hydrolases during the life cycle of Aspergillus niger using developmental mutants ∆brlA and ∆flbA.

van Munster JM, Nitsche BM, Akeroyd M, Dijkhuizen L, van der Maarel MJ, Ram AF.

PLoS One. 2015 Jan 28;10(1):e0116269. doi: 10.1371/journal.pone.0116269. eCollection 2015.

36.

The capacity of Aspergillus niger to sense and respond to cell wall stress requires at least three transcription factors: RlmA, MsnA and CrzA.

Fiedler MR, Lorenz A, Nitsche BM, van den Hondel CA, Ram AF, Meyer V.

Fungal Biol Biotechnol. 2014 Dec 1;1:5. doi: 10.1186/s40694-014-0005-8. eCollection 2014.

37.

Identification of the UDP-glucose-4-epimerase required for galactofuranose biosynthesis and galactose metabolism in A. niger.

Park J, Tefsen B, Arentshorst M, Lagendijk E, van den Hondel CA, van Die I, Ram AF.

Fungal Biol Biotechnol. 2014 Oct 14;1:6. doi: 10.1186/s40694-014-0006-7. eCollection 2014.

38.

Genome mining and functional genomics for siderophore production in Aspergillus niger.

Franken AC, Lechner BE, Werner ER, Haas H, Lokman BC, Ram AF, van den Hondel CA, de Weert S, Punt PJ.

Brief Funct Genomics. 2014 Nov;13(6):482-92. doi: 10.1093/bfgp/elu026. Epub 2014 Jul 25.

PMID:
25062661
39.

The genome of the white-rot fungus Pycnoporus cinnabarinus: a basidiomycete model with a versatile arsenal for lignocellulosic biomass breakdown.

Levasseur A, Lomascolo A, Chabrol O, Ruiz-Dueñas FJ, Boukhris-Uzan E, Piumi F, Kües U, Ram AF, Murat C, Haon M, Benoit I, Arfi Y, Chevret D, Drula E, Kwon MJ, Gouret P, Lesage-Meessen L, Lombard V, Mariette J, Noirot C, Park J, Patyshakuliyeva A, Sigoillot JC, Wiebenga A, Wösten HA, Martin F, Coutinho PM, de Vries RP, Martínez AT, Klopp C, Pontarotti P, Henrissat B, Record E.

BMC Genomics. 2014 Jun 18;15:486. doi: 10.1186/1471-2164-15-486.

40.

Galactofuranose-coated gold nanoparticles elicit a pro-inflammatory response in human monocyte-derived dendritic cells and are recognized by DC-SIGN.

Chiodo F, Marradi M, Park J, Ram AF, Penadés S, van Die I, Tefsen B.

ACS Chem Biol. 2014 Feb 21;9(2):383-9. doi: 10.1021/cb4008265. Epub 2013 Dec 9.

PMID:
24304188
41.

Molecular genetic analysis of vesicular transport in Aspergillus niger reveals partial conservation of the molecular mechanism of exocytosis in fungi.

Kwon MJ, Arentshorst M, Fiedler M, de Groen FL, Punt PJ, Meyer V, Ram AF.

Microbiology. 2014 Feb;160(Pt 2):316-29. doi: 10.1099/mic.0.074252-0. Epub 2013 Dec 2.

PMID:
24295824
42.

The transcriptional repressor TupA in Aspergillus niger is involved in controlling gene expression related to cell wall biosynthesis, development, and nitrogen source availability.

Schachtschabel D, Arentshorst M, Nitsche BM, Morris S, Nielsen KF, van den Hondel CA, Klis FM, Ram AF.

PLoS One. 2013 Oct 29;8(10):e78102. doi: 10.1371/journal.pone.0078102. eCollection 2013.

43.

The role of coproporphyrinogen III oxidase and ferrochelatase genes in heme biosynthesis and regulation in Aspergillus niger.

Franken AC, Werner ER, Haas H, Lokman BC, van den Hondel CA, Ram AF, de Weert S, Punt PJ.

Appl Microbiol Biotechnol. 2013 Nov;97(22):9773-85. doi: 10.1007/s00253-013-5274-2. Epub 2013 Oct 11.

PMID:
24113826
44.

The transcriptomic signature of RacA activation and inactivation provides new insights into the morphogenetic network of Aspergillus niger.

Kwon MJ, Nitsche BM, Arentshorst M, Jørgensen TR, Ram AF, Meyer V.

PLoS One. 2013 Jul 24;8(7):e68946. doi: 10.1371/journal.pone.0068946. Print 2013. Erratum in: PLoS One. 2014;9(1). doi:10.1371/annotation/ffb09608-0f66-4985-97a9-3da9d498b3bf.

45.

Chitinases CtcB and CfcI modify the cell wall in sporulating aerial mycelium of Aspergillus niger.

van Munster JM, Nitsche BM, Krijgsheld P, van Wijk A, Dijkhuizen L, Wösten HA, Ram AF, van der Maarel MJ.

Microbiology. 2013 Sep;159(Pt 9):1853-67. doi: 10.1099/mic.0.067967-0. Epub 2013 Jul 7.

PMID:
23832003
46.

Autophagy promotes survival in aging submerged cultures of the filamentous fungus Aspergillus niger.

Nitsche BM, Burggraaf-van Welzen AM, Lamers G, Meyer V, Ram AF.

Appl Microbiol Biotechnol. 2013 Sep;97(18):8205-18. doi: 10.1007/s00253-013-4971-1. Epub 2013 May 23.

PMID:
23700238
47.

Deletion of flbA results in increased secretome complexity and reduced secretion heterogeneity in colonies of Aspergillus niger.

Krijgsheld P, Nitsche BM, Post H, Levin AM, Müller WH, Heck AJ, Ram AF, Altelaar AF, Wösten HA.

J Proteome Res. 2013 Apr 5;12(4):1808-19. doi: 10.1021/pr301154w. Epub 2013 Mar 22.

PMID:
23461488
48.

Heterogeneity in liquid shaken cultures of Aspergillus niger inoculated with melanised conidia or conidia of pigmentation mutants.

van Veluw GJ, Teertstra WR, de Bekker C, Vinck A, van Beek N, Muller WH, Arentshorst M, van der Mei HC, Ram AF, Dijksterhuis J, Wösten HA.

Stud Mycol. 2013 Mar 15;74(1):47-57. doi: 10.3114/sim0008. Epub 2012 Sep 14.

49.

Role of pigmentation in protecting Aspergillus niger conidiospores against pulsed light radiation.

Esbelin J, Mallea S, Ram AF, Carlin F.

Photochem Photobiol. 2013 May-Jun;89(3):758-61. doi: 10.1111/php.12037. Epub 2013 Jan 29.

PMID:
23278805
50.

The transcriptomic fingerprint of glucoamylase over-expression in Aspergillus niger.

Kwon MJ, Jørgensen TR, Nitsche BM, Arentshorst M, Park J, Ram AF, Meyer V.

BMC Genomics. 2012 Dec 13;13:701. doi: 10.1186/1471-2164-13-701.

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