P. Daran-Lapujade

发表

Energetic limits to metabolic flexibility: responses of Saccharomyces cerevisiae to glucose-galactose transitions.

J. van den Brink, M. Akeroyd, R. Van der Hoeven, 2009, Microbiology.

The fluxes through glycolytic enzymes in Saccharomyces cerevisiae are predominantly regulated at posttranscriptional levels

Barbara M. Bakker, J. Pronk, J. D. de Winde, 2007, Proceedings of the National Academy of Sciences.

Reproducibility of Oligonucleotide Microarray Transcriptome Analyses

J. Pronk, P. Daran-Lapujade, J. Nielsen, 2002, The Journal of Biological Chemistry.

Role of Transcriptional Regulation in Controlling Fluxes in Central Carbon Metabolism of Saccharomyces cerevisiae

J. Pronk, J. D. de Winde, P. Daran-Lapujade, 2004, Journal of Biological Chemistry.

Prolonged selection in aerobic, glucose-limited chemostat cultures of Saccharomyces cerevisiae causes a partial loss of glycolytic capacity.

J. Pronk, J. D. de Winde, P. Daran-Lapujade, 2005, Microbiology.

Physiological responses of Saccharomyces cerevisiae to industrially relevant conditions: Slow growth, low pH, and high CO2 levels

Xavier D. V. Hakkaart, J. Pronk, P. Daran-Lapujade, 2020, Biotechnology and bioengineering.

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

M. Kleerebezem, J. Pronk, P. Daran-Lapujade, 2015, Applied and Environmental Microbiology.

Proteome adaptation of Saccharomyces cerevisiae to severe calorie restriction in Retentostat cultures.

J. Pronk, P. Daran-Lapujade, S. Mohammed, 2014, Journal of proteome research.

Combinatorial effects of environmental parameters on transcriptional regulation in Saccharomyces cerevisiae: A quantitative analysis of a compendium of chemostat-based transcriptome data

Marcel JT Reinders, Lodewyk FA Wessels, Jack T Pronk, 2009, BMC Genomics.

Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: A three factor design

J. Pronk, P. Daran-Lapujade, C. Workman, 2008, BMC Genomics.

Integrated multilaboratory systems biology reveals differences in protein metabolism between two reference yeast strains.

Jens Nielsen, Barbara M. Bakker, Merja Penttilä, 2010, Nature communications.

When transcriptome meets metabolome: fast cellular responses of yeast to sudden relief of glucose limitation.

J. Pronk, P. Daran-Lapujade, J. Heijnen, 2006, Molecular systems biology.

Two-dimensional Transcriptome Analysis in Chemostat Cultures

J. Pronk, J. D. de Winde, P. Daran-Lapujade, 2005, Journal of Biological Chemistry.

De novo sequencing, assembly and analysis of the genome of the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D, a model for modern industrial biotechnology

Jens Nielsen, Wanwipa Vongsangnak, Dick de Ridder, 2012, Microbial Cell Factories.

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

Jack T. Pronk, Robert Mans, Marcel van den Broek, 2015, FEMS yeast research.

A proteome-integrated, carbon source dependent genetic regulatory network in Saccharomyces cerevisiae.

P. Daran-Lapujade, B. Teusink, S. Hubbard, 2019, Molecular omics.

Multiplex genome editing of microorganisms using CRISPR-Cas

J. A. Roubos, P. Daran-Lapujade, J. Daran, 2019, FEMS microbiology letters.

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

J. Pronk, P. Daran-Lapujade, J. Daran, 2015, FEMS yeast research.

Design and Experimental Evaluation of a Minimal, Innocuous Watermarking Strategy to Distinguish Near-Identical DNA and RNA Sequences

Eline D. Postma, P. Daran-Lapujade, J. Daran, 2020, ACS synthetic biology.

Acclimation of Saccharomyces cerevisiae to low temperature: a chemostat-based transcriptome analysis.

J. Pronk, P. Daran-Lapujade, J. Daran, 2007, Molecular biology of the cell.

An atypical PMR2 locus is responsible for hypersensitivity to sodium and lithium cations in the laboratory strain Saccharomyces cerevisiae CEN.PK113-7D.

J. Pronk, P. Daran-Lapujade, P. Kötter, 2009, FEMS yeast research.

Comparative genotyping of the Saccharomyces cerevisiae laboratory strains S288C and CEN.PK113-7D using oligonucleotide microarrays.

J. Pronk, P. Daran-Lapujade, P. Kötter, 2003, FEMS yeast research.

Shot-gun proteomics: why thousands of unidentified signals matter.

P. Daran-Lapujade, M. Pabst, Maxime den Ridder, 2019, FEMS yeast research.

The Genetic Makeup and Expression of the Glycolytic and Fermentative Pathways Are Highly Conserved Within the Saccharomyces Genus

P. Daran-Lapujade, J. Daran, M. A. van den Broek, 2018, Front. Genet..

Quantitative Physiology of Saccharomyces cerevisiae at Near-Zero Specific Growth Rates

J. Pronk, P. Daran-Lapujade, A. V. van Maris, 2009, Applied and Environmental Microbiology.

Full humanization of the glycolytic pathway in Saccharomyces cerevisiae.

Barbara M. Bakker, J. C. Wolters, P. Daran-Lapujade, 2022, Cell reports.

Measuring enzyme activities under standardized in vivo‐like conditions for systems biology

Barbara M. Bakker, J. Nielsen, J. van den Brink, 2010, The FEBS journal.

Proteome Dynamics During Transition From Exponential to Stationary Phase Under Aerobic and Anaerobic Conditions in Yeast

P. Daran-Lapujade, M. Pabst, Maxime den Ridder, 2022, bioRxiv.

gEL DNA: A Cloning- and Polymerase Chain Reaction-Free Method for CRISPR-Based Multiplexed Genome Editing.

P. Daran-Lapujade, J. Daran, Paola Randazzo, 2021, The CRISPR journal.

gEL DNA, a cloning- and PCR-free method for CRISPR-based multiplexed genome editing

P. Daran-Lapujade, J. Daran, Paola Randazzo, 2020, bioRxiv.

Transcriptome-Based Characterization of Interactions between Saccharomyces cerevisiae and Lactobacillus delbrueckii subsp. bulgaricus in Lactose-Grown Chemostat Cocultures

J. Pronk, P. Daran-Lapujade, M. Luttik, 2013, Applied and Environmental Microbiology.

A yeast with muscle doesn’t run faster: full humanization of the glycolytic pathway in Saccharomyces cerevisiae

J. C. Wolters, P. Daran-Lapujade, M. Luttik, 2021 .

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

J. Pronk, P. Daran-Lapujade, J. Daran, 2015, Eukaryotic Cell.

Aljoscha Wahl, Joseph J. Heijnen, Walter M. van Gulik, 2012, BMC Systems Biology.

Dynamics of Glycolytic Regulation during Adaptation of Saccharomyces cerevisiae to Fermentative Metabolism

Johannes H. de Winde, Joseph J. Heijnen, Jack T. Pronk, 2008, Applied and Environmental Microbiology.

Dynamics of Glycolytic Regulation during Adaptation of Saccharomyces cerevisiae to Fermentative Metabolism â•€

J. Pronk, P. Daran-Lapujade, J. Heijnen, 2008 .

Physiological and Transcriptional Responses of Saccharomyces cerevisiae to Zinc Limitation in Chemostat Cultures †

J. Pronk, P. Daran-Lapujade, T. Knijnenburg, 2007 .

Physiological and Transcriptional Responses of Anaerobic Chemostat Cultures of Saccharomyces cerevisiae Subjected to Diurnal Temperature Cycles

J. Pronk, P. Daran-Lapujade, D. de Ridder, 2014, Applied and Environmental Microbiology.

Control of the Glycolytic Flux in Saccharomyces cerevisiae Grown at Low Temperature

Jean-Marc Daran, Siew Leng Tai, Pascale Daran-Lapujade, 2007, Journal of Biological Chemistry.

To divide or not to divide: a key role of Rim15 in calorie-restricted yeast cultures.

J. Pronk, P. Daran-Lapujade, Markus M M Bisschops, 2014, Biochimica et biophysica acta.

Prolonged Maltose-Limited Cultivation of Saccharomyces cerevisiae Selects for Cells with Improved Maltose Affinity and Hypersensitivity

Johannes H. de Winde, Matthew D. W. Piper, Jack T. Pronk, 2004, Applied and Environmental Microbiology.

New insights into the Saccharomyces cerevisiae fermentation switch: Dynamic transcriptional response to anaerobicity and glucose-excess

Pascale Daran-Lapujade, Jack T Pronk, J. van den Brink, 2008, BMC Genomics.

Saccharomyces cerevisiae SFP1: at the crossroads of central metabolism and ribosome biogenesis.

Pascale Daran-Lapujade, Jack T Pronk, J. van den Brink, 2008, Microbiology.

Revisiting the role of yeast Sfp1 in ribosome biogenesis and cell size control: a chemostat study.

Pascale Daran-Lapujade, Jack T Pronk, J. van den Brink, 2008, Microbiology.

FnCpf1: a novel and efficient genome editing tool for Saccharomyces cerevisiae

Jean-Marc Daran, Sofia Dashko, Pascale Daran-Lapujade, 2017, Nucleic acids research.

A systematic evaluation of yeast sample preparation protocols for spectral identifications, proteome coverage and post-isolation modifications.

P. Daran-Lapujade, M. Pabst, Maxime den Ridder, 2022, Journal of proteomics.

A systematic evaluation of yeast sample preparation protocols for spectral identifications, proteome coverage and post-isolation modifications

P. Daran-Lapujade, M. Pabst, Maxime den Ridder, 2022, bioRxiv.

Chemostat-based micro-array analysis in baker's yeast.

J. Pronk, J. D. de Winde, P. Daran-Lapujade, 2009, Advances in microbial physiology.

Exploiting combinatorial cultivation conditions to infer transcriptional regulation

Jean-Marc Daran, Marcel JT Reinders, Lodewyk FA Wessels, 2007, BMC Genomics.

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

Jean-Marc Daran, Marcel van den Broek, Pascale Daran-Lapujade, 2015, FEMS yeast research.

Efficient simultaneous excision of multiple selectable marker cassettes using I-SceI-induced double-strand DNA breaks in Saccharomyces cerevisiae.

J. Pronk, P. Daran-Lapujade, J. Daran, 2014, FEMS yeast research.

amdSYM, a new dominant recyclable marker cassette for Saccharomyces cerevisiae

J. Pronk, P. Daran-Lapujade, J. Daran, 2012, FEMS yeast research.

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

Diethard Mattanovich, Jack T. Pronk, Minoska Valli, 2016, Applied and Environmental Microbiology.

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

J. Pronk, P. Daran-Lapujade, J. Daran, 2018, FEMS yeast research.

The diversity of protein turnover and abundance under nitrogen-limited steady-state conditions in Saccharomyces cerevisiae.

J. Pronk, P. Daran-Lapujade, A. Heck, 2011, Molecular bioSystems.

The Crabtree Effect Shapes the Saccharomyces cerevisiae Lag Phase during the Switch between Different Carbon Sources

K. Verstrepen, T. Wenseleers, J. van den Brink, 2018, mBio.

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

J. Pronk, P. Daran-Lapujade, P. Verheijen, 2017, Biochimica et biophysica acta. Molecular cell research.

Synthetic Genomics From a Yeast Perspective

Eline D. Postma, P. Daran-Lapujade, Charlotte C. Koster, 2022, Frontiers in Bioengineering and Biotechnology.

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

Xavier D. V. Hakkaart, J. Pronk, P. Daran-Lapujade, 2016, Microbial Cell Factories.

Extreme calorie restriction and energy source starvation in Saccharomyces cerevisiae represent distinct physiological states.

J. Pronk, J. D. de Winde, P. Daran-Lapujade, 2011, Biochimica et biophysica acta.

A supernumerary designer chromosome for modular in vivo pathway assembly in Saccharomyces cerevisiae

Jean-Marc Daran, Eline D. Postma, Sofia Dashko, 2020, bioRxiv.

Pathway swapping: Toward modular engineering of essential cellular processes

Jean-Marc Daran, Marcel van den Broek, Pascale Daran-Lapujade, 2016, Proceedings of the National Academy of Sciences.

Proteome analysis of yeast response to various nutrient limitations

Albert J R Heck, Asier Fullaondo, Pascale Daran-Lapujade, 2006, Molecular systems biology.

Long-read direct RNA sequencing of the mitochondrial transcriptome of Saccharomyces cerevisiae reveals condition-dependent intron turnover

P. Daran-Lapujade, M. Luttik, J. Daran, 2023, bioRxiv.

Cellular responses of Saccharomyces cerevisiae at near-zero growth rates: transcriptome analysis of anaerobic retentostat cultures

A. J. Maris, J. Pronk, P. Daran-Lapujade, 2011, FEMS yeast research.

Identity of the Growth-Limiting Nutrient Strongly Affects Storage Carbohydrate Accumulation in Anaerobic Chemostat Cultures of Saccharomyces cerevisiae

J. Pronk, P. Daran-Lapujade, M. Luttik, 2009, Applied and Environmental Microbiology.

A three‐way proteomics strategy allows differential analysis of yeast mitochondrial membrane protein complexes under anaerobic and aerobic conditions

J. Pronk, P. Daran-Lapujade, S. Mohammed, 2009, Proteomics.

Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes.

Marcel J T Reinders, Albert J R Heck, Bas van Breukelen, 2007, Microbiology.

A versatile, efficient strategy for assembly of multi-fragment expression vectors in Saccharomyces cerevisiae using 60 bp synthetic recombination sequences

Jean-Marc Daran, Marcel van den Broek, Pascale Daran-Lapujade, 2013, Microbial Cell Factories.

Top-Down, Knowledge-Based Genetic Reduction of Yeast Central Carbon Metabolism

Eline D. Postma, P. Daran-Lapujade, Philip A. de Groot, 2021, bioRxiv.

Modular, synthetic chromosomes as new tools for large scale engineering of metabolism

Eline D. Postma, P. Daran-Lapujade, J. Daran, 2021, bioRxiv.

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

J. Pronk, P. Daran-Lapujade, Markus M M Bisschops, 2015, Microbial cell.

Quantitative Physiology of Saccharomyces cerevisiae at Near-Zero Specific Growth Rates

J. Pronk, P. Daran-Lapujade, A. V. van Maris, 2009, Applied and Environmental Microbiology.

Whole-cell modeling in yeast predicts compartment-specific proteome constraints that drive metabolic strategies

Johan H. van Heerden, P. Daran-Lapujade, F. Bruggeman, 2021, bioRxiv.

Predicting Metabolic Fluxes Using Gene Expression Differences As Constraints

Marcel J. T. Reinders, Rogier J. P. van Berlo, Dick de Ridder, 2011, IEEE/ACM Transactions on Computational Biology and Bioinformatics.

Glutamate as an inhibitor of phosphoenolpyruvate carboxylase activity in Corynebacterium glutamicum

P. Daran-Lapujade, S. Delaunay, J. Goergen, 2004, Journal of Industrial Microbiology and Biotechnology.

Simulation of In Vivo Phosphoenolpyruvate Carboxylase Activity of Corynbacterium glutamicum during a Glutamate Production Process

P. Daran-Lapujade, S. Delaunay, J. Goergen, 2004 .

A protocol for introduction of multiple genetic modifications in Saccharomyces cerevisiae using CRISPR/Cas9

P. Daran-Lapujade, J. Daran, R. Mans, 2018, FEMS yeast research.

One-step assembly and targeted integration of multigene constructs assisted by the I-SceI meganuclease in Saccharomyces cerevisiae

J. Pronk, P. Daran-Lapujade, J. Daran, 2013, FEMS yeast research.

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

J. Pronk, P. Daran-Lapujade, W. V. van Gulik, 2015, Microbial Cell Factories.

Standardization and 'in vivo'-like enzyme activity measurements in yeast

Barbara M. Bakker, P. Daran-Lapujade, J. Heijnen, 2007 .

Physiological and Transcriptional Responses of Saccharomyces cerevisiae to Zinc Limitation in Chemostat Cultures

J. Pronk, P. Daran-Lapujade, T. Knijnenburg, 2007, Applied and Environmental Microbiology.

Contribution of Complex I NADH Dehydrogenase to Respiratory Energy Coupling in Glucose-Grown Cultures of Ogataea parapolymorpha

Xavier D. V. Hakkaart, J. Pronk, P. Daran-Lapujade, 2020, Applied and Environmental Microbiology.

Saccharomyces cerevisiae SFP1: at the crossroads of central metabolism and ribosome biogenesis.

J. van den Brink, J. Pronk, J. D. de Winde, 2008, Microbiology.