Andersen, Mikael Rørdam

Arvas, Mikko

Brandl, Julian

Meyer, Vera

Ram, Arthur F J

Workman, Mhairi

Online Research Database In Technology

                       General rights Copyright and moral rights for the publications made accessible in the public portal are retained by the authors and/or other copyright owners and it is a condition of accessing publications that users recognise and abide by the legal requirements associated with these rights.  • Users may download and print one copy of any publication from the public portal for the purpose of private study or research. • You may not further distribute the material or use it for any profit-making activity or commercial gain • You may freely distribute the URL identifying the publication in the public portal   If you believe that this document breaches copyright please contact us providing details, and we will remove access to the work immediately and investigate your claim.     Downloaded from orbit.dtu.dk on: Nov 08, 2017The development of a community consensus model for Aspergillus nigerBrandl, Julian; Workman, Mhairi; Arvas, Mikko; Meyer, Vera; Ram, Arthur F J; Andersen, Mikael RørdamPublished in:Book of abstracts from the 13th European Conference on Fungal GeneticsPublication date:2016Document VersionPublisher's PDF, also known as Version of recordLink back to DTU OrbitCitation (APA):Brandl, J., Workman, M., Arvas, M., Meyer, V., Ram, A. F. J., & Andersen, M. R. (2016). The development of acommunity consensus model for Aspergillus niger. In Book of abstracts from the 13th European Conference onFungal Genetics (pp. 435-435). [CS5T49]13th European Conference on Fungal Genetics, 3-6 April, 2016, Paris, France, Scientific Program   435  POSTER SESSION ABSTRACTS Session CS5 Applied genomics and biotechnology CS5T49  Tuesday 5th April   14:00 - 16:00   BRANDL Julian (1), WORKMAN Mhairi (1), ARVAS Mikko (2), MEYER Vera (3), RAM Arthur Fj (4), ANDERSEN Mikael Rørdam (1) (1) Department of Systems Biology, Technical University of Denmark, Kgs. Lyngby, Denmark   (2) Synthetic Biology Team, VTT Technical Research Centre of Finland, Esbo, Finland   (3) Technical University of Berlin, Berlin, Germany   (4) Institute of Biology Leiden, Leiden University, Leiden, The Netherlands  The development of a community consensus model for Aspergillus niger  Fungal primary metabolism is an essential part of fungal physiology and affects all phenotypic traits of the organism as well as carrying the biotechnological potential for the fungal host. While the study of individual pathways have gained essential knowledge and important scientific breakthroughs, a genome-scale view of metabolism is required to gain a holistic understanding of the cell. Mathematical models based on the stoichiometry of known enzymatic reactions have been developed in order to facilitate this approach and proven useful for guiding metabolic engineering in well characterized model organisms like S. cerevisiae and E. coli. With the sustained interest in Aspergillus niger as a potent host organism for citric acid and enzyme production, it was timely to improve on previous genome-scale modeling efforts. Here we have updated the genome-scale model by a combination of modeling, experimental work, and integration of the most recent literature information. In this new version of the model, the gene assignments have been improved by utilizing the genomes of the section Nigri being sequenced and analyzed in a community effort. Using these genomes in a comparative approach, we were able to identify shared isoenzymes and gene groups involved in primary metabolism between these closely related species in the section Nigri. In order to improve the coverage of our model in terms of nitrogen and carbon sources, we used Biolog plates for the screening of more than 270 carbon and nitrogen sources. Using this information we could identify missing substrates that have been subsequently added to the model as well as validated the presence of pathways already included in the model. In order to being able to simulate protein production we have included all enzymes that have been reported to be secreted in the literature thereby accounting for the natural catabolic activity of this fungus. Additionally we added all known pathways for the synthesis of secondary metabolites in order to enable the usage of the model to guide engineering of secondary metabolite cell factories. Here we present results from the modeling performance of said model and show an improvement over previous work. In conclusion this project has generated an experimentally validated community-consensus model of the A. niger metabolism being able to describe and predict beneficial modifications to the metabolic network in order to improve protein production on a variety of different substrates.     

The development of a community consensus model for <i>Aspergillus niger</i>

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The development of a community consensus model for <i>Aspergillus niger</i>

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