Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger

Lubbers, Ronnie J. M.; Dilokpimol, Adiphol; Navarro, Jorge; Peng, Mao; Wang, Mei; Lipzen, Anna; Ng, Vivian; Grigoriev, Igor V.; Visser, Jaap; Hildén, Kristiina S.; de Vries, Ronald P.

doi:10.3389/fbioe.2019.00249

Title: Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger

Abstract

Cinnamic acid is an aromatic compound commonly found in plants and functions as a central intermediate in lignin synthesis. Filamentous fungi are able to degrade cinnamic acid through multiple metabolic pathways. One of the best studied pathways is the non-oxidative decarboxylation of cinnamic acid to styrene. In Aspergillus niger, the enzymes cinnamic acid decarboxylase (CdcA, formally ferulic acid decarboxylase) and the flavin prenyltransferase (PadA) catalyze together the non-oxidative decarboxylation of cinnamic acid and sorbic acid. The corresponding genes, cdcA and padA, are clustered in the genome together with a putative transcription factor previously named sorbic acid decarboxylase regulator (SdrA). While SdrA was predicted to be involved in the regulation of the non-oxidative decarboxylation of cinnamic acid and sorbic acid, this was never functionally analyzed. In this study, A. niger deletion mutants of sdrA, cdcA, and padA were made to further investigate the role of SdrA in cinnamic acid metabolism. Phenotypic analysis revealed that cdcA, sdrA and padA are exclusively involved in the degradation of cinnamic acid and sorbic acid and not required for other related aromatic compounds. Whole genome transcriptome analysis of ΔsdrA grown on different cinnamic acid related compounds, revealed additional target genes, which were also clustered with cdcA,more »« less

Authors:: Lubbers, Ronnie J. M.; Dilokpimol, Adiphol; Navarro, Jorge; Peng, Mao; Wang, Mei; Lipzen, Anna; Ng, Vivian; Grigoriev, Igor V.; Visser, Jaap; Hildén, Kristiina S.; de Vries, Ronald P.

Publication Date:: 2019-09-27

Research Org.:: Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)

Sponsoring Org.:: USDOE Office of Science (SC)

OSTI Identifier:: 1566916

Alternate Identifier(s):: OSTI ID: 1581323

Grant/Contract Number:: AC02-05CH11231

Resource Type:: Published Article

Journal Name:: Frontiers in Bioengineering and Biotechnology

Additional Journal Information:: Journal Name: Frontiers in Bioengineering and Biotechnology Journal Volume: 7; Journal ID: ISSN 2296-4185

Publisher:: Frontiers Research Foundation

Country of Publication:: Switzerland

Language:: English

Subject:: 59 BASIC BIOLOGICAL SCIENCES; fungal aromatic metabolism; Aspergilli; synteny analysis; transcription factor; flavoprotein; cinnamic acid decarboxylase

Citation Formats


                    Lubbers, Ronnie J. M., Dilokpimol, Adiphol, Navarro, Jorge, Peng, Mao, Wang, Mei, Lipzen, Anna, Ng, Vivian, Grigoriev, Igor V., Visser, Jaap, Hildén, Kristiina S., and de Vries, Ronald P. Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger.  Switzerland: N. p., 2019. 
Web.  doi:10.3389/fbioe.2019.00249.

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                    Lubbers, Ronnie J. M., Dilokpimol, Adiphol, Navarro, Jorge, Peng, Mao, Wang, Mei, Lipzen, Anna, Ng, Vivian, Grigoriev, Igor V., Visser, Jaap, Hildén, Kristiina S., & de Vries, Ronald P. Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger.  Switzerland.  https://doi.org/10.3389/fbioe.2019.00249

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                    Lubbers, Ronnie J. M., Dilokpimol, Adiphol, Navarro, Jorge, Peng, Mao, Wang, Mei, Lipzen, Anna, Ng, Vivian, Grigoriev, Igor V., Visser, Jaap, Hildén, Kristiina S., and de Vries, Ronald P. Fri .  
"Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger".  Switzerland.  https://doi.org/10.3389/fbioe.2019.00249.

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@article{osti_1566916,

  title        = {Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger},

  author       = {Lubbers, Ronnie J. M. and Dilokpimol, Adiphol and Navarro, Jorge and Peng, Mao and Wang, Mei and Lipzen, Anna and Ng, Vivian and Grigoriev, Igor V. and Visser, Jaap and Hildén, Kristiina S. and de Vries, Ronald P.},

  abstractNote = {Cinnamic acid is an aromatic compound commonly found in plants and functions as a central intermediate in lignin synthesis. Filamentous fungi are able to degrade cinnamic acid through multiple metabolic pathways. One of the best studied pathways is the non-oxidative decarboxylation of cinnamic acid to styrene. In Aspergillus niger, the enzymes cinnamic acid decarboxylase (CdcA, formally ferulic acid decarboxylase) and the flavin prenyltransferase (PadA) catalyze together the non-oxidative decarboxylation of cinnamic acid and sorbic acid. The corresponding genes, cdcA and padA, are clustered in the genome together with a putative transcription factor previously named sorbic acid decarboxylase regulator (SdrA). While SdrA was predicted to be involved in the regulation of the non-oxidative decarboxylation of cinnamic acid and sorbic acid, this was never functionally analyzed. In this study, A. niger deletion mutants of sdrA, cdcA, and padA were made to further investigate the role of SdrA in cinnamic acid metabolism. Phenotypic analysis revealed that cdcA, sdrA and padA are exclusively involved in the degradation of cinnamic acid and sorbic acid and not required for other related aromatic compounds. Whole genome transcriptome analysis of ΔsdrA grown on different cinnamic acid related compounds, revealed additional target genes, which were also clustered with cdcA, sdrA, and padA in the A. niger genome. Synteny analysis using 30 Aspergillus genomes demonstrated a conserved cinnamic acid decarboxylation gene cluster in most Aspergilli of the Nigri clade. Aspergilli lacking certain genes in the cluster were unable to grow on cinnamic acid, but could still grow on related aromatic compounds, confirming the specific role of these three genes for cinnamic acid metabolism of A. niger.},

  doi          = {10.3389/fbioe.2019.00249},

  journal      = {Frontiers in Bioengineering and Biotechnology},

  number       = ,

  volume       = 7,

  place        = {Switzerland},

  year         = {2019},

  month        = {9}

}

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Works referenced in this record:

Overexpression of PAD1 and FDC1 results in significant cinnamic acid decarboxylase activity in Saccharomyces cerevisiae
journal, February 2015

Richard, Peter; Viljanen, Kaarina; Penttilä, Merja
AMB Express, Vol. 5, Issue 1
DOI: 10.1186/s13568-015-0103-x

The BTB domain, found primarily in zinc finger proteins, defines an evolutionarily conserved family that includes several developmentally regulated genes in Drosophila.
journal, October 1994

Zollman, S.; Godt, D.; Prive, G. G.
Proceedings of the National Academy of Sciences, Vol. 91, Issue 22
DOI: 10.1073/pnas.91.22.10717

The Catenin p120 ^ctn Interacts with Kaiso, a Novel BTB/POZ Domain Zinc Finger Transcription Factor
journal, May 1999

Daniel, Juliet M.; Reynolds, Albert B.
Molecular and Cellular Biology, Vol. 19, Issue 5
DOI: 10.1128/MCB.19.5.3614

Degradation of Potassium Sorbate by Penicillium Species
journal, October 1966

Marth, E. H.; Capp, Constance M.; Hasenzahl, L.
Journal of Dairy Science, Vol. 49, Issue 10
DOI: 10.3168/jds.S0022-0302(66)88053-0

The occurrence, metabolism and toxicity of cinnamic acid and related compounds
journal, December 1984

Hoskins, John A.
Journal of Applied Toxicology, Vol. 4, Issue 6
DOI: 10.1002/jat.2550040602

The old 3-oxoadipate pathway revisited: New insights in the catabolism of aromatics in the saprophytic fungus Aspergillus nidulans
journal, January 2015

Martins, Tiago M.; Hartmann, Diego O.; Planchon, Sébastien
Fungal Genetics and Biology, Vol. 74
DOI: 10.1016/j.fgb.2014.11.002

Metabolism of cinnamic acid by Aspergillus niger
journal, March 1969

Clifford, D. R.; Faulkner, J. K.; Walker, J. R. L.
Phytochemistry, Vol. 8, Issue 3
DOI: 10.1016/S0031-9422(00)85398-4

The decarboxylation of the weak-acid preservative, sorbic acid, is encoded by linked genes in Aspergillus spp.
journal, August 2010

Plumridge, Andrew; Melin, Petter; Stratford, Malcolm
Fungal Genetics and Biology, Vol. 47, Issue 8
DOI: 10.1016/j.fgb.2010.04.011

Metabolic Engineering of the Shikimate Pathway for Production of Aromatics and Derived Compounds—Present and Future Strain Construction Strategies
journal, March 2018

Averesch, Nils J. H.; Krömer, Jens O.
Frontiers in Bioengineering and Biotechnology, Vol. 6
DOI: 10.3389/fbioe.2018.00032

Natural Formation of Styrene by Cinnamon Mold Flora
journal, August 2009

Lafeuille, J. -L.; Buniak, M. -L.; Vioujas, M. -C.
Journal of Food Science, Vol. 74, Issue 6
DOI: 10.1111/j.1750-3841.2009.01206.x

Combinatorial control of gene expression in Aspergillus niger grown on sugar beet pectin
journal, September 2017

Kowalczyk, Joanna E.; Lubbers, Ronnie J. M.; Peng, Mao
Scientific Reports, Vol. 7, Issue 1
DOI: 10.1038/s41598-017-12362-y

The Aspergillus niger faeB gene encodes a second feruloyl esterase involved in pectin and xylan degradation and is specifically induced in the presence of aromatic compounds
journal, April 2002

de VRIES, Ronald P.; vanKUYK, Patricia A.; Kester, Harry C. M.
Biochemical Journal, Vol. 363, Issue 2
DOI: 10.1042/bj3630377

Production in food of 1,3-pentadiene and styrene by Trichoderma species
journal, May 2007

Pinches, S. E.; Apps, P.
International Journal of Food Microbiology, Vol. 116, Issue 1
DOI: 10.1016/j.ijfoodmicro.2006.12.001

Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae
journal, December 2005

Galagan, James E.; Calvo, Sarah E.; Cuomo, Christina
Nature, Vol. 438, Issue 7071
DOI: 10.1038/nature04341

Genome sequencing and analysis of Aspergillus oryzae
journal, December 2005

Machida, Masayuki; Asai, Kiyoshi; Sano, Motoaki
Nature, Vol. 438, Issue 7071
DOI: 10.1038/nature04300

Authentication and Quantitative Analysis on the Chemical Profile of Cassia Bark (Cortex Cinnamomi) by High-Pressure Liquid Chromatography
journal, April 2005

He, Zhen-Dan; Qiao, Chun-Feng; Han, Quan-Bin
Journal of Agricultural and Food Chemistry, Vol. 53, Issue 7
DOI: 10.1021/jf048116s

Production of Cinnamic and p-Hydroxycinnamic Acids in Engineered Microbes
journal, August 2015

Vargas-Tah, Alejandra; Gosset, Guillermo
Frontiers in Bioengineering and Biotechnology, Vol. 3
DOI: 10.3389/fbioe.2015.00116

Degradation of styrene by white-rot fungi
journal, February 1997

Braun-Lüllemann, A.; Majcherczyk, A.; Hüttermann, A.
Applied Microbiology and Biotechnology, Vol. 47, Issue 2
DOI: 10.1007/s002530050904

Characterization and induction of phenolic acid decarboxylase from Aspergillus luchuensis
journal, August 2018

Maeda, Mayumi; Tokashiki, Masashi; Tokashiki, Midori
Journal of Bioscience and Bioengineering, Vol. 126, Issue 2
DOI: 10.1016/j.jbiosc.2018.02.009

Genetic analysis and the construction of master strains for assignment of genes to six linkage groups in Aspergillus niger
journal, November 1988

Bos, C. J.; Debets, A. J. M.; Swart, K.
Current Genetics, Vol. 14, Issue 5
DOI: 10.1007/BF00521266

Transformation of Aspergillus based on the hygromycin B resistance marker from Escherichia coli
journal, January 1987

Punt, Peter J.; Oliver, Richard P.; Dingemanse, Maria A.
Gene, Vol. 56, Issue 1
DOI: 10.1016/0378-1119(87)90164-8

Growth and Inhibition of Microorganisms in the Presence of Sorbic Acid: A Review
journal, April 1985

Liewen, Michael B.; Marth, Elmer H.
Journal of Food Protection, Vol. 48, Issue 4
DOI: 10.4315/0362-028X-48.4.364

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources
journal, November 2011

Arnaud, M. B.; Cerqueira, G. C.; Inglis, D. O.
Nucleic Acids Research, Vol. 40, Issue D1
DOI: 10.1093/nar/gkr875

A comparison between the homocyclic aromatic metabolic pathways from plant-derived compounds by bacteria and fungi
journal, November 2019

Lubbers, Ronnie J. M.; Dilokpimol, Adiphol; Visser, Jaap
Biotechnology Advances, Vol. 37, Issue 7
DOI: 10.1016/j.biotechadv.2019.05.002

Mapping the structural requirements of inducers and substrates for decarboxylation of weak acid preservatives by the food spoilage mould Aspergillus niger
journal, July 2012

Stratford, Malcolm; Plumridge, Andrew; Pleasants, Mike W.
International Journal of Food Microbiology, Vol. 157, Issue 3
DOI: 10.1016/j.ijfoodmicro.2012.06.007

Creating pathways towards aromatic building blocks and fine chemicals
journal, December 2015

Thompson, Brian; Machas, Michael; Nielsen, David R.
Current Opinion in Biotechnology, Vol. 36
DOI: 10.1016/j.copbio.2015.07.004

New cofactor supports α,β-unsaturated acid decarboxylation via 1,3-dipolar cycloaddition
journal, June 2015

Payne, Karl A. P.; White, Mark D.; Fisher, Karl
Nature, Vol. 522, Issue 7557
DOI: 10.1038/nature14560

Metabolic engineering for plant natural product biosynthesis in microbes
journal, December 2008

Chemler, Joseph A.; Koffas, Mattheos AG
Current Opinion in Biotechnology, Vol. 19, Issue 6
DOI: 10.1016/j.copbio.2008.10.011

Terminal Alkenes from Acrylic Acid Derivatives via Non-Oxidative Enzymatic Decarboxylation by Ferulic Acid Decarboxylases
journal, July 2018

Aleku, Godwin A.; Prause, Christoph; Bradshaw-Allen, Ruth T.
ChemCatChem, Vol. 10, Issue 17
DOI: 10.1002/cctc.201800643

Isolation and molecular characterisation of the benzoate-para-hydroxylase gene (bphA) of Aspergillus niger: A member of a new gene family of the cytochrome P450 superfamily
journal, September 1990

van Gorcom, Robert F. M.; Boschloo, Johan G.; Kuijvenhoven, Anneke
Molecular and General Genetics MGG, Vol. 223, Issue 2
DOI: 10.1007/BF00265053

Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus
journal, April 2008

Fedorova, Natalie D.; Khaldi, Nora; Joardar, Vinita S.
PLoS Genetics, Vol. 4, Issue 4, Article No. e1000046
DOI: 10.1371/journal.pgen.1000046

DeepLoc: prediction of protein subcellular localization using deep learning
journal, July 2017

Almagro Armenteros, José Juan; Sønderby, Casper Kaae; Sønderby, Søren Kaae
Bioinformatics, Vol. 33, Issue 21
DOI: 10.1093/bioinformatics/btx431

PAD1 and FDC1 are essential for the decarboxylation of phenylacrylic acids in Saccharomyces cerevisiae
journal, June 2010

Mukai, Nobuhiko; Masaki, Kazuo; Fujii, Tsutomu
Journal of Bioscience and Bioengineering, Vol. 109, Issue 6, p. 564-569
DOI: 10.1016/j.jbiosc.2009.11.011

Metabolism of lignin related aromatic compounds by Aspergillus japonicus
journal, January 1983

Milstein, Oleg; Vered, Yaffa; Shragina, Lea
Archives of Microbiology, Vol. 135, Issue 2
DOI: 10.1007/BF00408025

Fungal metabolism—I.The transformations of coumarin, o-coumaric acid and trans-cinnamic acid by Aspergillus niger
journal, January 1967

Bocks, Sheila M.
Phytochemistry, Vol. 6, Issue 1
DOI: 10.1016/0031-9422(67)85017-9

The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi
journal, September 2018

Aguilar-Pontes, M. V.; Brandl, J.; McDonnell, E.
Studies in Mycology, Vol. 91
DOI: 10.1016/j.simyco.2018.10.001

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus
journal, February 2017

de Vries, Ronald P.; Riley, Robert; Wiebenga, Ad
Genome Biology, Vol. 18, Issue 1
DOI: 10.1186/s13059-017-1151-0

Cinnamon and Health
journal, September 2010

Gruenwald, Joerg; Freder, Janine; Armbruester, Nicole
Critical Reviews in Food Science and Nutrition, Vol. 50, Issue 9
DOI: 10.1080/10408390902773052

Whole genome comparison of Aspergillus flavus and A. oryzae
journal, January 2006

Payne, G. A.; Nierman, W. C.; Wortman, J. R.
Medical Mycology, Vol. 44, Issue s1
DOI: 10.1080/13693780600835716

Production of l-Phenylalanine from trans-Cinnamic Acid with Rhodotorula glutinis Containing l-Phenylalanine Ammonia-Lyase Activity
journal, January 1981

Yamada, Shigeki; Nabe, Koichi; Izuo, Nobuhiko
Applied and Environmental Microbiology, Vol. 42, Issue 5
DOI: 10.1128/AEM.42.5.773-778.1981

Highly efficient gene targeting in the Aspergillus niger kusA mutant
journal, March 2007

Meyer, Vera; Arentshorst, Mark; El-Ghezal, Aymen
Journal of Biotechnology, Vol. 128, Issue 4
DOI: 10.1016/j.jbiotec.2006.12.021

A New Black Aspergillus Species, A. vadensis, Is a Promising Host for Homologous and Heterologous Protein Production
journal, July 2004

de Vries, R. P.; Burgers, K.; van de Vondervoort, P. J. I.
Applied and Environmental Microbiology, Vol. 70, Issue 7
DOI: 10.1128/AEM.70.7.3954-3959.2004

MycoCosm portal: gearing up for 1000 fungal genomes
journal, December 2013

Grigoriev, Igor V.; Nikitin, Roman; Haridas, Sajeet
Nucleic Acids Research, Vol. 42, Issue D1
DOI: 10.1093/nar/gkt1183

Biodegradation of a model allelochemical cinnamic acid by a novel endophytic fungus Phomopsis liquidambari
journal, October 2015

Xie, Xing-Guang; Dai, Chuan-Chao
International Biodeterioration & Biodegradation, Vol. 104
DOI: 10.1016/j.ibiod.2015.08.004

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
journal, December 2014

Love, Michael I.; Huber, Wolfgang; Anders, Simon
Genome Biology, Vol. 15, Issue 12
DOI: 10.1186/s13059-014-0550-8

Regulators of plant biomass degradation in ascomycetous fungi
journal, June 2017

Benocci, Tiziano; Aguilar-Pontes, Maria Victoria; Zhou, Miaomiao
Biotechnology for Biofuels, Vol. 10, Issue 1
DOI: 10.1186/s13068-017-0841-x

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
journal, December 2005

Nierman, William C.; Pain, Arnab; Anderson, Michael J.
Nature, Vol. 438, Issue 7071, p. 1151-1156
DOI: 10.1038/nature04332

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Title: Cinnamic Acid and Sorbic acid Conversion Are Mediated by the Same Transcriptional Regulator in Aspergillus niger

Abstract

Citation Formats

Overexpression of PAD1 and FDC1 results in significant cinnamic acid decarboxylase activity in Saccharomyces cerevisiae journal, February 2015

The BTB domain, found primarily in zinc finger proteins, defines an evolutionarily conserved family that includes several developmentally regulated genes in Drosophila. journal, October 1994

The Catenin p120 ctn Interacts with Kaiso, a Novel BTB/POZ Domain Zinc Finger Transcription Factor journal, May 1999

Degradation of Potassium Sorbate by Penicillium Species journal, October 1966

The occurrence, metabolism and toxicity of cinnamic acid and related compounds journal, December 1984

The old 3-oxoadipate pathway revisited: New insights in the catabolism of aromatics in the saprophytic fungus Aspergillus nidulans journal, January 2015

Metabolism of cinnamic acid by Aspergillus niger journal, March 1969

The decarboxylation of the weak-acid preservative, sorbic acid, is encoded by linked genes in Aspergillus spp. journal, August 2010

Metabolic Engineering of the Shikimate Pathway for Production of Aromatics and Derived Compounds—Present and Future Strain Construction Strategies journal, March 2018

Natural Formation of Styrene by Cinnamon Mold Flora journal, August 2009

Combinatorial control of gene expression in Aspergillus niger grown on sugar beet pectin journal, September 2017

The Aspergillus niger faeB gene encodes a second feruloyl esterase involved in pectin and xylan degradation and is specifically induced in the presence of aromatic compounds journal, April 2002

Production in food of 1,3-pentadiene and styrene by Trichoderma species journal, May 2007

Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae journal, December 2005

Genome sequencing and analysis of Aspergillus oryzae journal, December 2005

Authentication and Quantitative Analysis on the Chemical Profile of Cassia Bark (Cortex Cinnamomi) by High-Pressure Liquid Chromatography journal, April 2005

Production of Cinnamic and p-Hydroxycinnamic Acids in Engineered Microbes journal, August 2015

Degradation of styrene by white-rot fungi journal, February 1997

Characterization and induction of phenolic acid decarboxylase from Aspergillus luchuensis journal, August 2018

Genetic analysis and the construction of master strains for assignment of genes to six linkage groups in Aspergillus niger journal, November 1988

Transformation of Aspergillus based on the hygromycin B resistance marker from Escherichia coli journal, January 1987

Growth and Inhibition of Microorganisms in the Presence of Sorbic Acid: A Review journal, April 1985

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources journal, November 2011

A comparison between the homocyclic aromatic metabolic pathways from plant-derived compounds by bacteria and fungi journal, November 2019

Mapping the structural requirements of inducers and substrates for decarboxylation of weak acid preservatives by the food spoilage mould Aspergillus niger journal, July 2012

Creating pathways towards aromatic building blocks and fine chemicals journal, December 2015

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Metabolic engineering for plant natural product biosynthesis in microbes journal, December 2008

Terminal Alkenes from Acrylic Acid Derivatives via Non-Oxidative Enzymatic Decarboxylation by Ferulic Acid Decarboxylases journal, July 2018

Isolation and molecular characterisation of the benzoate-para-hydroxylase gene (bphA) of Aspergillus niger: A member of a new gene family of the cytochrome P450 superfamily journal, September 1990

Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus journal, April 2008

DeepLoc: prediction of protein subcellular localization using deep learning journal, July 2017

PAD1 and FDC1 are essential for the decarboxylation of phenylacrylic acids in Saccharomyces cerevisiae journal, June 2010

Metabolism of lignin related aromatic compounds by Aspergillus japonicus journal, January 1983

Fungal metabolism—I.The transformations of coumarin, o-coumaric acid and trans-cinnamic acid by Aspergillus niger journal, January 1967

The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi journal, September 2018

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Cinnamon and Health journal, September 2010

Whole genome comparison of Aspergillus flavus and A. oryzae journal, January 2006

Production of l-Phenylalanine from trans-Cinnamic Acid with Rhodotorula glutinis Containing l-Phenylalanine Ammonia-Lyase Activity journal, January 1981

Highly efficient gene targeting in the Aspergillus niger kusA mutant journal, March 2007

A New Black Aspergillus Species, A. vadensis, Is a Promising Host for Homologous and Heterologous Protein Production journal, July 2004

MycoCosm portal: gearing up for 1000 fungal genomes journal, December 2013

Biodegradation of a model allelochemical cinnamic acid by a novel endophytic fungus Phomopsis liquidambari journal, October 2015

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 journal, December 2014

Regulators of plant biomass degradation in ascomycetous fungi journal, June 2017

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus journal, December 2005

Overexpression of PAD1 and FDC1 results in significant cinnamic acid decarboxylase activity in Saccharomyces cerevisiae
journal, February 2015

The BTB domain, found primarily in zinc finger proteins, defines an evolutionarily conserved family that includes several developmentally regulated genes in Drosophila.
journal, October 1994

The Catenin p120 ^ctn Interacts with Kaiso, a Novel BTB/POZ Domain Zinc Finger Transcription Factor
journal, May 1999

Degradation of Potassium Sorbate by Penicillium Species
journal, October 1966

The occurrence, metabolism and toxicity of cinnamic acid and related compounds
journal, December 1984

The old 3-oxoadipate pathway revisited: New insights in the catabolism of aromatics in the saprophytic fungus Aspergillus nidulans
journal, January 2015

Metabolism of cinnamic acid by Aspergillus niger
journal, March 1969

The decarboxylation of the weak-acid preservative, sorbic acid, is encoded by linked genes in Aspergillus spp.
journal, August 2010

Metabolic Engineering of the Shikimate Pathway for Production of Aromatics and Derived Compounds—Present and Future Strain Construction Strategies
journal, March 2018

Natural Formation of Styrene by Cinnamon Mold Flora
journal, August 2009

Combinatorial control of gene expression in Aspergillus niger grown on sugar beet pectin
journal, September 2017

The Aspergillus niger faeB gene encodes a second feruloyl esterase involved in pectin and xylan degradation and is specifically induced in the presence of aromatic compounds
journal, April 2002

Production in food of 1,3-pentadiene and styrene by Trichoderma species
journal, May 2007

Sequencing of Aspergillus nidulans and comparative analysis with A. fumigatus and A. oryzae
journal, December 2005

Genome sequencing and analysis of Aspergillus oryzae
journal, December 2005

Authentication and Quantitative Analysis on the Chemical Profile of Cassia Bark (Cortex Cinnamomi) by High-Pressure Liquid Chromatography
journal, April 2005

Production of Cinnamic and p-Hydroxycinnamic Acids in Engineered Microbes
journal, August 2015

Degradation of styrene by white-rot fungi
journal, February 1997

Characterization and induction of phenolic acid decarboxylase from Aspergillus luchuensis
journal, August 2018

Genetic analysis and the construction of master strains for assignment of genes to six linkage groups in Aspergillus niger
journal, November 1988

Transformation of Aspergillus based on the hygromycin B resistance marker from Escherichia coli
journal, January 1987

Growth and Inhibition of Microorganisms in the Presence of Sorbic Acid: A Review
journal, April 1985

The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources
journal, November 2011

A comparison between the homocyclic aromatic metabolic pathways from plant-derived compounds by bacteria and fungi
journal, November 2019

Mapping the structural requirements of inducers and substrates for decarboxylation of weak acid preservatives by the food spoilage mould Aspergillus niger
journal, July 2012

Creating pathways towards aromatic building blocks and fine chemicals
journal, December 2015

New cofactor supports α,β-unsaturated acid decarboxylation via 1,3-dipolar cycloaddition
journal, June 2015

Metabolic engineering for plant natural product biosynthesis in microbes
journal, December 2008

Terminal Alkenes from Acrylic Acid Derivatives via Non-Oxidative Enzymatic Decarboxylation by Ferulic Acid Decarboxylases
journal, July 2018

Isolation and molecular characterisation of the benzoate-para-hydroxylase gene (bphA) of Aspergillus niger: A member of a new gene family of the cytochrome P450 superfamily
journal, September 1990

Genomic Islands in the Pathogenic Filamentous Fungus Aspergillus fumigatus
journal, April 2008

DeepLoc: prediction of protein subcellular localization using deep learning
journal, July 2017

PAD1 and FDC1 are essential for the decarboxylation of phenylacrylic acids in Saccharomyces cerevisiae
journal, June 2010

Metabolism of lignin related aromatic compounds by Aspergillus japonicus
journal, January 1983

Fungal metabolism—I.The transformations of coumarin, o-coumaric acid and trans-cinnamic acid by Aspergillus niger
journal, January 1967

The gold-standard genome of Aspergillus niger NRRL 3 enables a detailed view of the diversity of sugar catabolism in fungi
journal, September 2018

Comparative genomics reveals high biological diversity and specific adaptations in the industrially and medically important fungal genus Aspergillus
journal, February 2017

Cinnamon and Health
journal, September 2010

Whole genome comparison of Aspergillus flavus and A. oryzae
journal, January 2006

Production of l-Phenylalanine from trans-Cinnamic Acid with Rhodotorula glutinis Containing l-Phenylalanine Ammonia-Lyase Activity
journal, January 1981

Highly efficient gene targeting in the Aspergillus niger kusA mutant
journal, March 2007

A New Black Aspergillus Species, A. vadensis, Is a Promising Host for Homologous and Heterologous Protein Production
journal, July 2004

MycoCosm portal: gearing up for 1000 fungal genomes
journal, December 2013

Biodegradation of a model allelochemical cinnamic acid by a novel endophytic fungus Phomopsis liquidambari
journal, October 2015

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
journal, December 2014

Regulators of plant biomass degradation in ascomycetous fungi
journal, June 2017

Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus
journal, December 2005