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Items: 1 to 50 of 237

1.

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

Gorter de Vries AR, Couwenberg LGF, van den Broek M, de la Torre Cortés P, Ter Horst J, Pronk JT, Daran JG.

Nucleic Acids Res. 2018 Dec 5. doi: 10.1093/nar/gky1216. [Epub ahead of print]

2.

A toolkit for rapid CRISPR-SpCas9 assisted construction of hexose-transport-deficient Saccharomyces cerevisiae strains.

Wijsman M, Swiat MA, Marques WL, Hettinga JK, van den Broek M, Torre Cortés P, Mans R, Pronk JT, Daran JM, Daran-Lapujade P.

FEMS Yeast Res. 2019 Jan 1;19(1). doi: 10.1093/femsyr/foy107.

3.

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

Juergens H, Niemeijer M, Jennings-Antipov LD, Mans R, Morel J, van Maris AJA, Pronk JT, Gardner TS.

Sci Data. 2018 Oct 3;5:180195. doi: 10.1038/sdata.2018.195.

4.

Reassessment of requirements for anaerobic xylose fermentation by engineered, non-evolved Saccharomyces cerevisiae strains.

Bracher JM, Martinez-Rodriguez OA, Dekker WJC, Verhoeven MD, van Maris AJA, Pronk JT.

FEMS Yeast Res. 2019 Jan 1;19(1). doi: 10.1093/femsyr/foy104.

5.

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

Marques WL, van der Woude LN, Luttik MAH, van den Broek M, Nijenhuis JM, Pronk JT, van Maris AJA, Mans R, Gombert AK.

Yeast. 2018 Dec;35(12):639-652. doi: 10.1002/yea.3357. Epub 2018 Oct 15.

PMID:
30221387
6.

Structural, Physiological and Regulatory Analysis of Maltose Transporter Genes in Saccharomyces eubayanus CBS 12357T.

Brickwedde A, Brouwers N, van den Broek M, Gallego Murillo JS, Fraiture JL, Pronk JT, Daran JG.

Front Microbiol. 2018 Aug 10;9:1786. doi: 10.3389/fmicb.2018.01786. eCollection 2018.

7.

Selection of Pof-Saccharomyces eubayanus Variants for the Construction of S. cerevisiae × S. eubayanus Hybrids With Reduced 4-Vinyl Guaiacol Formation.

Diderich JA, Weening SM, van den Broek M, Pronk JT, Daran JG.

Front Microbiol. 2018 Jul 27;9:1640. doi: 10.3389/fmicb.2018.01640. eCollection 2018.

8.

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

Verhoeven MD, de Valk SC, Daran JG, van Maris AJA, Pronk JT.

FEMS Yeast Res. 2018 Dec 1;18(8). doi: 10.1093/femsyr/foy075.

PMID:
30010916
9.

Galacturonate Metabolism in Anaerobic Chemostat Enrichment Cultures: Combined Fermentation and Acetogenesis by the Dominant sp. nov. "Candidatus Galacturonibacter soehngenii".

Valk LC, Frank J, de la Torre-Cortés P, van 't Hof M, van Maris AJA, Pronk JT, van Loosdrecht MCM.

Appl Environ Microbiol. 2018 Aug 31;84(18). pii: e01370-18. doi: 10.1128/AEM.01370-18. Print 2018 Sep 15.

10.

Laboratory evolution of a glucose-phosphorylation-deficient, arabinose-fermenting S. cerevisiae strain reveals mutations in GAL2 that enable glucose-insensitive l-arabinose uptake.

Verhoeven MD, Bracher JM, Nijland JG, Bouwknegt J, Daran JG, Driessen AJM, van Maris AJA, Pronk JT.

FEMS Yeast Res. 2018 Sep 1;18(6). doi: 10.1093/femsyr/foy062.

11.

A Simulator-Assisted Workshop for Teaching Chemostat Cultivation in Academic Classes on Microbial Physiology.

Hakkaart XDV, Pronk JT, van Maris AJA.

J Microbiol Biol Educ. 2017 Oct 4;18(3). pii: 18.3.51. doi: 10.1128/jmbe.v18i3.1292. eCollection 2017.

12.

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

Papapetridis I, Verhoeven MD, Wiersma SJ, Goudriaan M, van Maris AJA, Pronk JT.

FEMS Yeast Res. 2018 Sep 1;18(6). doi: 10.1093/femsyr/foy056.

13.

The Penicillium chrysogenum transporter PcAraT enables high-affinity, glucose-insensitive l-arabinose transport in Saccharomyces cerevisiae.

Bracher JM, Verhoeven MD, Wisselink HW, Crimi B, Nijland JG, Driessen AJM, Klaassen P, van Maris AJA, Daran JG, Pronk JT.

Biotechnol Biofuels. 2018 Mar 13;11:63. doi: 10.1186/s13068-018-1047-6. eCollection 2018.

14.

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

Juergens H, Varela JA, Gorter de Vries AR, Perli T, Gast VJM, Gyurchev NY, Rajkumar AS, Mans R, Pronk JT, Morrissey JP, Daran JG.

FEMS Yeast Res. 2018 May 1;18(3). doi: 10.1093/femsyr/foy012.

15.

Optimizing anaerobic growth rate and fermentation kinetics in Saccharomyces cerevisiae strains expressing Calvin-cycle enzymes for improved ethanol yield.

Papapetridis I, Goudriaan M, Vázquez Vitali M, de Keijzer NA, van den Broek M, van Maris AJA, Pronk JT.

Biotechnol Biofuels. 2018 Jan 25;11:17. doi: 10.1186/s13068-017-1001-z. eCollection 2018.

16.

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

Marques WL, Mans R, Henderson RK, Marella ER, Horst JT, Hulster E, Poolman B, Daran JM, Pronk JT, Gombert AK, van Maris AJA.

Metab Eng. 2018 Jan;45:121-133. doi: 10.1016/j.ymben.2017.11.012. Epub 2017 Dec 2.

PMID:
29196124
17.

Under pressure: evolutionary engineering of yeast strains for improved performance in fuels and chemicals production.

Mans R, Daran JG, Pronk JT.

Curr Opin Biotechnol. 2018 Apr;50:47-56. doi: 10.1016/j.copbio.2017.10.011. Epub 2017 Nov 20. Review.

18.

A CRISPR/Cas9-based exploration into the elusive mechanism for lactate export in Saccharomyces cerevisiae.

Mans R, Hassing EJ, Wijsman M, Giezekamp A, Pronk JT, Daran JM, van Maris AJA.

FEMS Yeast Res. 2017 Dec 1;17(8). doi: 10.1093/femsyr/fox085.

PMID:
29145596
19.

Evolutionary Engineering in Chemostat Cultures for Improved Maltotriose Fermentation Kinetics in Saccharomyces pastorianus Lager Brewing Yeast.

Brickwedde A, van den Broek M, Geertman JA, Magalhães F, Kuijpers NGA, Gibson B, Pronk JT, Daran JG.

Front Microbiol. 2017 Sep 8;8:1690. doi: 10.3389/fmicb.2017.01690. eCollection 2017.

20.

Saccharomyces cerevisiae strains for second-generation ethanol production: from academic exploration to industrial implementation.

Jansen MLA, Bracher JM, Papapetridis I, Verhoeven MD, de Bruijn H, de Waal PP, van Maris AJA, Klaassen P, Pronk JT.

FEMS Yeast Res. 2017 Aug 1;17(5). doi: 10.1093/femsyr/fox044. Review.

21.

Laboratory Evolution of a Biotin-Requiring Saccharomyces cerevisiae Strain for Full Biotin Prototrophy and Identification of Causal Mutations.

Bracher JM, de Hulster E, Koster CC, van den Broek M, Daran JG, van Maris AJA, Pronk JT.

Appl Environ Microbiol. 2017 Aug 1;83(16). pii: e00892-17. doi: 10.1128/AEM.00892-17. Print 2017 Aug 15.

22.

Metabolic engineering strategies for optimizing acetate reduction, ethanol yield and osmotolerance in Saccharomyces cerevisiae.

Papapetridis I, van Dijk M, van Maris AJA, Pronk JT.

Biotechnol Biofuels. 2017 Apr 26;10:107. doi: 10.1186/s13068-017-0791-3. eCollection 2017.

23.

Mutations in PMR1 stimulate xylose isomerase activity and anaerobic growth on xylose of engineered Saccharomyces cerevisiae by influencing manganese homeostasis.

Verhoeven MD, Lee M, Kamoen L, van den Broek M, Janssen DB, Daran JG, van Maris AJ, Pronk JT.

Sci Rep. 2017 Apr 12;7:46155. doi: 10.1038/srep46155.

24.

Industrial Relevance of Chromosomal Copy Number Variation in Saccharomyces Yeasts.

Gorter de Vries AR, Pronk JT, Daran JG.

Appl Environ Microbiol. 2017 May 17;83(11). pii: e03206-16. doi: 10.1128/AEM.03206-16. Print 2017 Jun 1. Review.

25.

Elimination of sucrose transport and hydrolysis in Saccharomyces cerevisiae: a platform strain for engineering sucrose metabolism.

Marques WL, Mans R, Marella ER, Cordeiro RL, van den Broek M, Daran JG, Pronk JT, Gombert AK, van Maris AJ.

FEMS Yeast Res. 2017 Jan 1;17(1). doi: 10.1093/femsyr/fox006.

26.

Pathway swapping: Toward modular engineering of essential cellular processes.

Kuijpers NG, Solis-Escalante D, Luttik MA, Bisschops MM, Boonekamp FJ, van den Broek M, Pronk JT, Daran JM, Daran-Lapujade P.

Proc Natl Acad Sci U S A. 2016 Dec 27;113(52):15060-15065. doi: 10.1073/pnas.1606701113. Epub 2016 Dec 12.

27.

Extreme calorie restriction in yeast retentostats induces uniform non-quiescent growth arrest.

Bisschops MM, Luttik MA, Doerr A, Verheijen PJ, Bruggeman F, Pronk JT, Daran-Lapujade P.

Biochim Biophys Acta Mol Cell Res. 2017 Jan;1864(1):231-242. doi: 10.1016/j.bbamcr.2016.11.002. Epub 2016 Nov 4.

28.

A new laboratory evolution approach to select for constitutive acetic acid tolerance in Saccharomyces cerevisiae and identification of causal mutations.

González-Ramos D, Gorter de Vries AR, Grijseels SS, van Berkum MC, Swinnen S, van den Broek M, Nevoigt E, Daran JM, Pronk JT, van Maris AJ.

Biotechnol Biofuels. 2016 Aug 12;9:173. doi: 10.1186/s13068-016-0583-1. eCollection 2016.

29.

Maintenance-energy requirements and robustness of Saccharomyces cerevisiae at aerobic near-zero specific growth rates.

Vos T, Hakkaart XD, de Hulster EA, van Maris AJ, Pronk JT, Daran-Lapujade P.

Microb Cell Fact. 2016 Jun 17;15(1):111. doi: 10.1186/s12934-016-0501-z.

30.

Pichia pastoris Exhibits High Viability and a Low Maintenance Energy Requirement at Near-Zero Specific Growth Rates.

Rebnegger C, Vos T, Graf AB, Valli M, Pronk JT, Daran-Lapujade P, Mattanovich D.

Appl Environ Microbiol. 2016 Jul 15;82(15):4570-4583. doi: 10.1128/AEM.00638-16. Print 2016 Aug 1.

31.

Requirements for Carnitine Shuttle-Mediated Translocation of Mitochondrial Acetyl Moieties to the Yeast Cytosol.

van Rossum HM, Kozak BU, Niemeijer MS, Dykstra JC, Luttik MA, Daran JM, van Maris AJ, Pronk JT.

MBio. 2016 May 3;7(3). pii: e00520-16. doi: 10.1128/mBio.00520-16.

32.

Improving ethanol yield in acetate-reducing Saccharomyces cerevisiae by cofactor engineering of 6-phosphogluconate dehydrogenase and deletion of ALD6.

Papapetridis I, van Dijk M, Dobbe AP, Metz B, Pronk JT, van Maris AJ.

Microb Cell Fact. 2016 Apr 26;15:67. doi: 10.1186/s12934-016-0465-z.

33.

Engineering cytosolic acetyl-coenzyme A supply in Saccharomyces cerevisiae: Pathway stoichiometry, free-energy conservation and redox-cofactor balancing.

van Rossum HM, Kozak BU, Pronk JT, van Maris AJA.

Metab Eng. 2016 Jul;36:99-115. doi: 10.1016/j.ymben.2016.03.006. Epub 2016 Mar 23. Review.

34.

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

van Rossum HM, Kozak BU, Niemeijer MS, Duine HJ, Luttik MA, Boer VM, Kötter P, Daran JM, van Maris AJ, Pronk JT.

FEMS Yeast Res. 2016 May;16(3). pii: fow017. doi: 10.1093/femsyr/fow017. Epub 2016 Feb 18.

35.

Replacement of the initial steps of ethanol metabolism in Saccharomyces cerevisiae by ATP-independent acetylating acetaldehyde dehydrogenase.

Kozak BU, van Rossum HM, Niemeijer MS, van Dijk M, Benjamin K, Wu L, Daran JM, Pronk JT, van Maris AJ.

FEMS Yeast Res. 2016 Mar;16(2):fow006. doi: 10.1093/femsyr/fow006. Epub 2016 Jan 26.

36.

Excessive by-product formation: A key contributor to low isobutanol yields of engineered Saccharomyces cerevisiae strains.

Milne N, Wahl SA, van Maris AJA, Pronk JT, Daran JM.

Metab Eng Commun. 2016 Jan 20;3:39-51. doi: 10.1016/j.meteno.2016.01.002. eCollection 2016 Dec.

37.

Comparative assessment of native and heterologous 2-oxo acid decarboxylases for application in isobutanol production by Saccharomyces cerevisiae.

Milne N, van Maris AJ, Pronk JT, Daran JM.

Biotechnol Biofuels. 2015 Dec 1;8:204. doi: 10.1186/s13068-015-0374-0. eCollection 2015.

38.

Oxygen availability strongly affects chronological lifespan and thermotolerance in batch cultures of Saccharomyces cerevisiae.

Bisschops MM, Vos T, Martínez-Moreno R, Cortés PT, Pronk JT, Daran-Lapujade P.

Microb Cell. 2015 Oct 21;2(11):429-444. doi: 10.15698/mic2015.11.238.

39.

Growth-rate dependency of de novo resveratrol production in chemostat cultures of an engineered Saccharomyces cerevisiae strain.

Vos T, de la Torre Cortés P, van Gulik WM, Pronk JT, Daran-Lapujade P.

Microb Cell Fact. 2015 Sep 14;14:133. doi: 10.1186/s12934-015-0321-6.

40.

Chromosomal Copy Number Variation in Saccharomyces pastorianus Is Evidence for Extensive Genome Dynamics in Industrial Lager Brewing Strains.

van den Broek M, Bolat I, Nijkamp JF, Ramos E, Luttik MA, Koopman F, Geertman JM, de Ridder D, Pronk JT, Daran JM.

Appl Environ Microbiol. 2015 Sep;81(18):6253-67. doi: 10.1128/AEM.01263-15. Epub 2015 Jul 6.

41.

A Minimal Set of Glycolytic Genes Reveals Strong Redundancies in Saccharomyces cerevisiae Central Metabolism.

Solis-Escalante D, Kuijpers NG, Barrajon-Simancas N, van den Broek M, Pronk JT, Daran JM, Daran-Lapujade P.

Eukaryot Cell. 2015 Aug;14(8):804-16. doi: 10.1128/EC.00064-15. Epub 2015 Jun 12.

42.

Physiological and Transcriptional Responses of Different Industrial Microbes at Near-Zero Specific Growth Rates.

Ercan O, Bisschops MM, Overkamp W, Jørgensen TR, Ram AF, Smid EJ, Pronk JT, Kuipers OP, Daran-Lapujade P, Kleerebezem M.

Appl Environ Microbiol. 2015 Sep 1;81(17):5662-70. doi: 10.1128/AEM.00944-15. Epub 2015 Jun 5. Review.

43.

Functional expression of a heterologous nickel-dependent, ATP-independent urease in Saccharomyces cerevisiae.

Milne N, Luttik MAH, Cueto Rojas HF, Wahl A, van Maris AJA, Pronk JT, Daran JM.

Metab Eng. 2015 Jul;30:130-140. doi: 10.1016/j.ymben.2015.05.003. Epub 2015 May 30.

44.

Editorial overview: Energy biotechnology.

Papoutsakis ET, Pronk JT.

Curr Opin Biotechnol. 2015 Jun;33:viii-xi. doi: 10.1016/j.copbio.2015.04.001. Epub 2015 May 18. No abstract available.

PMID:
25998091
45.

How to set up collaborations between academia and industrial biotech companies.

Pronk JT, Lee SY, Lievense J, Pierce J, Palsson B, Uhlen M, Nielsen J.

Nat Biotechnol. 2015 Mar;33(3):237-40. doi: 10.1038/nbt.3171. No abstract available.

PMID:
25748909
46.

S. cerevisiae × S. eubayanus interspecific hybrid, the best of both worlds and beyond.

Hebly M, Brickwedde A, Bolat I, Driessen MR, de Hulster EA, van den Broek M, Pronk JT, Geertman JM, Daran JM, Daran-Lapujade P.

FEMS Yeast Res. 2015 May;15(3). pii: fov005. doi: 10.1093/femsyr/fov005. Epub 2015 Mar 4.

PMID:
25743788
47.

CRISPR/Cas9: a molecular Swiss army knife for simultaneous introduction of multiple genetic modifications in Saccharomyces cerevisiae.

Mans R, van Rossum HM, Wijsman M, Backx A, Kuijpers NG, van den Broek M, Daran-Lapujade P, Pronk JT, van Maris AJ, Daran JM.

FEMS Yeast Res. 2015 Mar;15(2). pii: fov004. doi: 10.1093/femsyr/fov004. Epub 2015 Mar 4.

48.

The genome sequence of the popular hexose-transport-deficient Saccharomyces cerevisiae strain EBY.VW4000 reveals LoxP/Cre-induced translocations and gene loss.

Solis-Escalante D, van den Broek M, Kuijpers NG, Pronk JT, Boles E, Daran JM, Daran-Lapujade P.

FEMS Yeast Res. 2015 Mar;15(2). pii: fou004. doi: 10.1093/femsyr/fou004.

PMID:
25673752
49.

Engineering acetyl coenzyme A supply: functional expression of a bacterial pyruvate dehydrogenase complex in the cytosol of Saccharomyces cerevisiae.

Kozak BU, van Rossum HM, Luttik MA, Akeroyd M, Benjamin KR, Wu L, de Vries S, Daran JM, Pronk JT, van Maris AJ.

MBio. 2014 Oct 21;5(5):e01696-14. doi: 10.1128/mBio.01696-14.

50.

Evolutionary engineering to enhance starter culture performance in food fermentations.

Bachmann H, Pronk JT, Kleerebezem M, Teusink B.

Curr Opin Biotechnol. 2015 Apr;32:1-7. doi: 10.1016/j.copbio.2014.09.003. Epub 2014 Sep 29. Review.

PMID:
25269887

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