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 »
- Authors:
- Publication Date:
- 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.
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
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.
@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}
}
https://doi.org/10.3389/fbioe.2019.00249
Web of Science
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
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
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
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
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
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
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
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
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
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
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
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
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
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
Genome sequencing and analysis of Aspergillus oryzae
journal, December 2005
- Machida, Masayuki; Asai, Kiyoshi; Sano, Motoaki
- Nature, Vol. 438, Issue 7071
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
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
Cinnamon and Health
journal, September 2010
- Gruenwald, Joerg; Freder, Janine; Armbruester, Nicole
- Critical Reviews in Food Science and Nutrition, Vol. 50, Issue 9
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
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
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
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
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
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
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
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
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