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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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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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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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Mans, R. (author), Else-Hassing, J. (author), Wijsman, M. (author), Giezekamp, Annabel (author), Pronk, J.T. (author), Daran, J.G. (author), van Maris, A.J.A. (author)CRISPR/Cas9-based genome editing allows rapid, simultaneous modification of multiple genetic loci in Saccharomyces cerevisiae. Here, this technique was used in a functional analysis study aimed at identifying the hitherto unknown mechanism of lactate export in this yeast. First, an S. cerevisiae strain was constructed with deletions in 25...journal article 2017
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Bracher, J.M. (author), de Hulster, A.F. (author), Koster, C.C. (author), van den Broek, M.A. (author), Daran, J.G. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)Biotin prototrophy is a rare, incompletely understood, and industrially relevant characteristic of Saccharomyces cerevisiae strains. The genome of the haploid laboratory strain CEN.PK113-7D contains a full complement of biotin biosynthesis genes, but its growth in biotin-free synthetic medium is extremely slow (specific growth rate [μ] ≈ 0.01...journal article 2017
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Gorter de Vries, A.R. (author), Pronk, J.T. (author), Daran, J.G. (author)Chromosomal copy number variation (CCNV) plays a key role in evolution and health of eukaryotes. The unicellular yeast Saccharomyces cerevisiae is an important model for studying the generation, physiological impact, and evolutionary significance of CCNV. Fundamental studies of this yeast have contributed to an extensive set of methods for...journal article 2017
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Verhoeven, M.D. (author), Lee, Misun (author), Kamoen, L. (author), van den Broek, M.A. (author), Janssen, Dick B. (author), Daran, J.G. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)Combined overexpression of xylulokinase, pentose-phosphate-pathway enzymes and a heterologous xylose isomerase (XI) is required but insufficient for anaerobic growth of Saccharomyces cerevisiae on d-xylose. Single-step Cas9-assisted implementation of these modifications yielded a yeast strain expressing Piromyces XI that showed fast aerobic...journal article 2017
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Brickwedde, A. (author), van den Broek, M.A. (author), Geertman, Jan Maarten A. (author), Magalhães, Frederico (author), Kuijpers, Niels G.A. (author), Gibson, Brian (author), Pronk, J.T. (author), Daran, J.G. (author)The lager brewing yeast Saccharomyces pastorianus, an interspecies hybrid of S. eubayanus and S. cerevisiae, ferments maltotriose, maltose, sucrose, glucose and fructose in wort to ethanol and carbon dioxide. Complete and timely conversion ("attenuation") of maltotriose by industrial S. pastorianus strains is a key requirement for process...journal article 2017
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Marques, W.L. (author), Mans, R. (author), Marella, Eko Roy (author), Cordeiro, Rosa Lorizolla (author), van den Broek, M.A. (author), Daran, J.G. (author), Pronk, J.T. (author), Gombert, Andreas K. (author), van Maris, A.J.A. (author)Many relevant options to improve efficacy and kinetics of sucrose metabolism in Saccharomyces cerevisiae and, thereby, the economics of sucrose-based processes remain to be investigated. An essential first step is to identify all native sucrose-hydrolysing enzymes and sucrose transporters in this yeast, including those that can be activated...journal article 2017
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Gonzalez Ramos, D. (author), Gorter de Vries, A.R. (author), Grijseels, Sietske S. (author), van Berkum, M.C. (author), Swinnen, Steve (author), van den Broek, M.A. (author), Nevoigt, Elke (author), Daran, J.G. (author), Pronk, J.T. (author), van Maris, A.J.A. (author)Background: Acetic acid, released during hydrolysis of lignocellulosic feedstocks for second generation bioethanol production, inhibits yeast growth and alcoholic fermentation. Yeast biomass generated in a propagation step that precedes ethanol production should therefore express a high and constitutive level of acetic acid tolerance before...journal article 2016
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Milne, N.S.W. (author), Wahl, S.A. (author), Van Maris, A.J.A. (author), Pronk, J.T. (author), Daran, J.M. (author)It is theoretically possible to engineer Saccharomyces cerevisiae strains in which isobutanol is the predominant catabolic product and high-yielding isobutanol-producing strains are already reported by industry. Conversely, isobutanol yields of engineered S. cerevisiae strains reported in the scientific literature typically remain far below 10%...journal article 2016
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Kozak, B.U. (author), Rossum, Harmen M. (author), Niemeijer, M.S. (author), van Dijk, M. (author), Benjamin, Kirsten (author), Wu, Liang (author), Daran, J.G. (author), Pronk, J.T. (author), van Maris, A.J.A. (author)In Saccharomyces cerevisiae ethanol dissimilation is initiated by its oxidation and activation to cytosolic acetyl-CoA. The associated consumption of ATP strongly limits yields of biomass and acetyl-CoA-derived products. Here, we explore the implementation of an ATP-independent pathway for acetyl-CoA synthesis from ethanol that, in theory,...journal article 2016
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Rossum, Harmen M. (author), Kozak, B.U. (author), Niemeijer, M.S. (author), Dykstra, James C. (author), Luttik, M.A.H. (author), Daran, J.G. (author), van Maris, A.J.A. (author), Pronk, J.T. (author)In many eukaryotes, the carnitine shuttle plays a key role in intracellular transport of acyl moieties. Fatty acidgrown Saccharomyces cerevisiae cells employ this shuttle to translocate acetyl units into their mitochondria. Mechanistically, the carnitine shuttle should be reversible, but previous studies indicate that carnitine shuttle...journal article 2016
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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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Milne, N. (author), Van Maris, A.J.A. (author), Pronk, J.T. (author), Daran, J.M. (author)Background: Decarboxylation of ?-ketoisovalerate to isobutyraldehyde is a key reaction in metabolic engineering of Saccharomyces cerevisiae for isobutanol production with published studies relying on overexpression of either the native ARO10 gene or of the Lactococcus lactis kivD decarboxylase gene resulting in low enzymatic activities. Here, we...journal article 2015
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Daran, J.G. (author), Pronk, J.T. (author), Romagnoli, G. (author)The invention relates to a nucleic acid molecule encoding a novel selection marker. Said marker is a guanidinobutyrase from Kluyveromyces lactis, which, when expressed in Saccharomyces, allows the growth of the yeast in the presence of guanidinobutyrate as the sole nitrogen source. Said marker can be used in a method for producing a...patent 2015
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Van den Broek, M. (author), Bolat, I. (author), Nijkamp, J.F. (author), Ramos, E. (author), Luttik, M.A.H. (author), Koopman, F. (author), Geertman, J.M. (author), De Ridder, D. (author), Pronk, J.T. (author), Daran, J.M. (author)Lager brewing strains of Saccharomyces pastorianus are natural interspecific hybrids originating from the spontaneous hybridization of Saccharomyces cerevisiae and Saccharomyces eubayanus. Over the past 500 years, S. pastorianus has been domesticated to become one of the most important industrial microorganisms. Production of lager-type beers...journal article 2015
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Milne, N. (author), Luttik, M.A.H. (author), Cueto Rojas, H.F. (author), Wahl, A. (author), Van Maris, A.J.A. (author), Pronk, J.T. (author), Daran, J.G. (author)In microbial processes for production of proteins, biomass and nitrogen-containing commodity chemicals, ATP requirements for nitrogen assimilation affect product yields on the energy producing substrate. In Saccharomyces cerevisiae, a current host for heterologous protein production and potential platform for production of nitrogen-containing...journal article 2015
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Solis-Escalante, D. (author), Kuijpers, N.G.A. (author), Barrajon-Simancas, N. (author), Van den Broek, M. (author), Pronk, J.T. (author), Daran, J.M. (author), Daran-Lapujade, P. (author)As a result of ancestral whole-genome and small-scale duplication events, the genomes of Saccharomyces cerevisiae and many eukaryotes still contain a substantial fraction of duplicated genes. In all investigated organisms, metabolic pathways, and more particularly glycolysis, are specifically enriched for functionally redundant paralogs. In...journal article 2015
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Mans, R. (author), Van Rossum, H.M. (author), Wijsman, M. (author), Backx, A. (author), Kuijpers, N.G.A. (author), van den Broek, M. (author), Daran-Lapujade, P.A.S. (author), Pronk, J.T. (author), Van Maris, A.J.A. (author), Daran, J.G. (author)A variety of techniques for strain engineering in Saccharomyces cerevisiae have recently been developed. However, especially when multiple genetic manipulations are required, strain construction is still a time-consuming process. This study describes new CRISPR/Cas9-based approaches for easy, fast strain construction in yeast and explores their...journal article 2015