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Combined engineering of disaccharide transport and phosphorolysis for enhanced ATP yield from sucrose fermentation in Saccharomyces cerevisiae

Marques, W.L. (author), Mans, R. (author), Henderson, Ryan K. (author), Marella, Eko Roy (author), ter Horst, J. (author), de Hulster, A.F. (author), Poolman, Bert (author), Daran, J.G. (author), Pronk, J.T. (author), Gombert, Andreas K. (author), van Maris, A.J.A. (author)

Anaerobic industrial fermentation processes do not require aeration and intensive mixing and the accompanying cost savings are beneficial for production of chemicals and fuels. However, the free-energy conservation of fermentative pathways is often insufficient for the production and export of the desired compounds and/or for cellular growth...

journal article 2018

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Structural, physiological and regulatory analysis of maltose transporter genes in Saccharomyces eubayanus CBS 12357^T

Brickwedde, A. (author), Brouwers, N. (author), van den Broek, M.A. (author), Gallego Murillo, Joan Sebastián (author), Fraiture, J.L. (author), Pronk, J.T. (author), Daran, J.G. (author)

Saccharomyces pastorianus lager brewing yeasts are domesticated hybrids of Saccharomyces cerevisiae and cold-tolerant Saccharomyces eubayanus. To understand the contribution of both parental genomes to maltose metabolism in brewing wort, this study focuses on maltose transport in the S. eubayanus type strain CBS 12357^T/FM1318. To...

journal article 2018

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Genome editing in Kluyveromyces and Ogataea yeasts using a broad-host-range Cas9/gRNA co-expression plasmid

Jürgens, H. (author), Varela, Javier A. (author), Gorter de Vries, A.R. (author), Perli, T. (author), Gast, V.J.M. (author), Gyurchev, N.Y. (author), Rajkumar, Arun S. (author), Mans, R. (author), Pronk, J.T. (author), Morrissey, John P. (author), Daran, J.G. (author)

While CRISPR-Cas9-mediated genome editing has transformed yeast research, current plasmids and cassettes for Cas9 and guide-RNA expression are species specific. CRISPR tools that function in multiple yeast species could contribute to the intensifying research on non-conventional yeasts. A plasmid carrying a pangenomic origin of replication...

journal article 2018

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Evaluation of a novel cloud-based software platform for structured experiment design and linked data analytics

Jürgens, H. (author), Niemeijer, M.S. (author), Jennings-Antipov, Laura D. (author), Mans, R. (author), Morel, Jack (author), van Maris, A.J.A. (author), Pronk, J.T. (author), Gardner, Timothy S. (author)

Open data in science requires precise definition of experimental procedures used in data generation, but traditional practices for sharing protocols and data cannot provide the required data contextualization. Here, we explore implementation, in an academic research setting, of a novel cloud-based software system designed to address this...

journal article 2018

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2-Deoxy-d-ribose-5-phosphate aldolase (DERA): applications and modifications

Haridas, M. (author), Abdelraheem, E.M.M. (author), Hanefeld, U. (author)

© 2018, The Author(s). 2-Deoxy-d-ribose-5-phosphate aldolase (DERA) is a class I aldolase that offers access to several building blocks for organic synthesis. It catalyzes the stereoselective C–C bond formation between acetaldehyde and numerous other aldehydes. However, the practical application of DERA as a biocatalyst is limited by its poor...

journal article 2018

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Laboratory evolution for forced glucose-xylose co-consumption enables identification of mutations that improve mixed-sugar fermentation by xylose-fermenting Saccharomyces cerevisiae

Papapetridis, I. (author), Verhoeven, M.D. (author), Wiersma, S.J. (author), Goudriaan, M. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)

Simultaneous fermentation of glucose and xylose can contribute to improved productivity and robustness of yeast-based processes for bioethanol production from lignocellulosic hydrolysates. This study explores a novel laboratory evolution strategy for identifying mutations that contribute to simultaneous utilisation of these sugars in batch...

journal article 2018

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Fermentation of glucose-xylose-arabinose mixtures by a synthetic consortium of single-sugar-fermenting Saccharomyces cerevisiae strains

Verhoeven, M.D. (author), de Valk, S.C. (author), Daran, J.G. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)

D-Glucose, D-xylose and L-arabinose are major sugars in lignocellulosic hydrolysates. This study explores fermentation of glucose-xylose-arabinose mixtures by a consortium of three ‘specialist’ Saccharomyces cerevisiae strains. A D-glucose- and L-arabinose-tolerant xylose specialist was constructed by eliminating hexose phosphorylation in an...

journal article 2018

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Laboratory evolution and physiological analysis of Saccharomyces cerevisiae strains dependent on sucrose uptake via the Phaseolus vulgaris Suf1 transporter

Marques, W.L. (author), van der Woude, L.N. (author), Luttik, M.A.H. (author), van den Broek, M.A. (author), Nijenhuis, J.M. (author), Pronk, J.T. (author), van Maris, A.J.A. (author), Mans, R. (author), Gombert, Andreas K. (author)

Knowledge on the genetic factors important for the efficient expression of plant transporters in yeast is still very limited. Phaseolus vulgaris sucrose facilitator 1 (PvSuf1), a presumable uniporter, was an essential component in a previously published strategy aimed at increasing ATP yield in Saccharomyces cerevisiae. However, attempts to...

journal article 2018

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Selection of Pof^- saccharomyces eubayanus variants for the construction of S. cerevisiae × S. eubayanus hybrids with reduced 4-Vinyl guaiacol formation

Diderich, J.A. (author), Weening, S.M. (author), van den Broek, M.A. (author), Pronk, J.T. (author), Daran, J.G. (author)

Saccharomyces pastorianus is an interspecies hybrid between S. cerevisiae and S. eubayanus. The identification of the parental species of S. pastorianus enabled the de novo reconstruction of hybrids that could potentially combine a wide array of phenotypic traits. Lager yeasts are characterized by their inability to decarboxylate ferulic acid...

journal article 2018

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A Photoenzymatic NADH Regeneration System

Höfler, G.T. (author), Fernandez Fueyo, E. (author), Pesic, M. (author), Younes, S.H.H. (author), Choi, Eun Gyu (author), Kim, Yong H. (author), Urlacher, Vlada B. (author), Arends, I.W.C.E. (author), Hollmann, F. (author)

A photoenzymatic NADH regeneration system was established. The combination of deazariboflavin as a photocatalyst with putidaredoxin reductase enabled the selective reduction of NAD⁺ into the enzyme-active 1,4-NADH to promote an alcohol dehydrogenase catalysed stereospecific reduction reaction. The catalytic turnover of all the...

journal article 2018

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Allele-specific genome editing using CRISPR-Cas9 is associated with loss of heterozygosity in diploid yeast

Gorter de Vries, A.R. (author), Couwenberg, Lucas G.F. (author), van den Broek, M.A. (author), De La Torre Cortés, Pilar (author), ter Horst, J. (author), Pronk, J.T. (author), Daran, J.G. (author)

Targeted DNA double-strand breaks (DSBs) with CRISPR-Cas9 have revolutionized genetic modification by enabling efficient genome editing in a broad range of eukaryotic systems. Accurate gene editing is possible with near-perfect efficiency in haploid or (predominantly) homozygous genomes. However, genomes exhibiting polyploidy and/or high...

journal article 2018

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A simulator-assisted workshop for teaching chemostat cultivation in academic classes on microbial physiology

Hakkaart, X.D.V. (author), Pronk, J.T. (author), van Maris, A.J.A. (author)

Understanding microbial growth and metabolism is a key learning objective of microbiology and biotechnology courses, essential for understanding microbial ecology, microbial biotechnology and medical microbiology. Chemostat cultivation, a key research tool in microbial physiology that enables quantitative analysis of growth and metabolism under...

journal article 2017

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Nanoparticles of lanthanide oxysulfate/oxysulfide for improved oxygen storage/release

Zhang, W. (author), Arends, I.W.C.E. (author), Djanashvili, K. (author)

Lanthanide oxysulfates have the ability to store and release large volumes of oxygen under oxidizing/reducing conditions, rendering them interesting as automotive catalysts. Herein we demonstrate a remarkable improvement of both processes by utilization of nanoparticles compared to the bulk materials. A further improvement of the catalytic...

journal article 2016

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Photobiocatalytic alcohol oxidation using LED light sources

Rauch, M.C.R. (author), Schmidt, S. (author), Arends, I.W.C.E. (author), oppelt, K. (author), Kara, S (author), Hollmann, F. (author)

The photocatalytic oxidation of NADH using a flavin photocatalyst and a simple blue LED light source is reported. This in situ NAD+ regeneration system can be used to promote biocatalytic, enantioselective oxidation reactions. Compared to the traditional use of white light bulbs this method enables very significant reductions in energy...

journal article 2016

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Alternative reactions at the interface of glycolysis and citric acid cycle in Saccharomyces cerevisiae

Rossum, Harmen M. (author), Kozak, B.U. (author), Niemeijer, M.S. (author), Duine, Hendrik J. (author), Luttik, M.A.H. (author), Boer, VM (author), Kötter, P (author), Daran, J.G. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)

Pyruvate and acetyl-coenzyme A, located at the interface between glycolysis and TCA cycle, are important intermediates in yeast metabolism and key precursors for industrially relevant products. Rational engineering of their supply requires knowledge of compensatory reactions that replace predominant pathways when these are inactivated. This...

journal article 2016

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Halo(natrono)archaea isolated from hypersaline lakes utilize cellulose and chitin as growth substrates

Sorokin, D.Y. (author), Toshchakov, S.V. (author), Kolganova, T.V. (author), Kublanov, I.V. (author)

Until recently, extremely halophilic euryarchaeota were considered mostly as aerobic heterotrophs utilizing simple organic compounds as growth substrates. Almost nothing is known on the ability of these prokaryotes to utilize complex polysaccharides, such as cellulose, xylan, and chitin. Although few haloarchaeal cellulases and chitinases were...

journal article 2015

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Deletion of the Saccharomyces cerevisiae ARO8 gene, encoding an aromatic amino acid transaminase, enhances phenylethanol production from glucose

Romagnoli, G. (author), Knijnenburg, T. A. (author), Liti, G. (author), Louis, E.J. (author), Pronk, J.T. (author), Daran, J.G. (author)

Phenylethanol has a characteristic rose-like aroma that makes it a popular ingredient in foods, beverages and cosmetics. Microbial production of phenylethanol currently relies on whole-cell bioconversion of phenylalanine with yeasts that harbour an Ehrlich pathway for phenylalanine catabolism. Complete biosynthesis of phenylethanol from a cheap...

journal article 2015

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Metabolic engineering of yeast for production of fuels and chemicals

Nielsen, J. (author), Larsson, C. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)

Microbial production of fuels and chemicals from renewable carbohydrate feedstocks offers sustainable and economically attractive alternatives to their petroleum-based production. The yeast Saccharomyces cerevisiae offers many advantages as a platform cell factory for such applications. Already applied on a huge scale for bioethanol production,...

journal article 2013

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Alleviation of feedback inhibition in Saccharomyces cerevisiae aromatic amino acid biosynthesis: Quantification of metabolic impact

Luttik, M.A.H. (author), Vuralhan, Z (author), Suir, E (author), Braus, G.H. (author), Pronk, J.T. (author), Daran, J.G. (author)

A quantitative analysis of the impact of feedback inhibition on aromatic amino acid biosynthesis was performed in chemostat cultures of Saccharomyces cerevisiae. Introduction of a tyrosine-insensitive allele of ARO4 (encoding 3-deoxy-d-arabino-heptulosonate-7-phosphate synthase) caused a three-fold increase of intracellular phenylalanine and...

journal article 2008