All Stories

  1. Assembly and cell-free expression of a partial genome for the synthetic cell

    Article • October 2025, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

  2. Exploration of mRNA-sized RNA import into Saccharomyces cerevisiae mitochondria by a combined synthetic biology and adaptive laboratory evolution approach

    Article • August 2025, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

  3. Draft genome sequence of the Saccharomyces cerevisiae Spy Cas9 expressing strain IMX2600, a laboratory and platform strain from the CEN.PK lineage for cell-factory research

    Article • Microbiology Resource Announcements, February 2024, ASM Journals

    Dr Pascale Daran-Lapujade

  4. Long‐read direct RNA sequencing of the mitochondrial transcriptome of Saccharomyces cerevisiae reveals condition‐dependent intron abundance

    Article • Yeast, August 2023, Wiley

    Dr Pascale Daran-Lapujade

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

    Article • Molecular & Cellular Proteomics, June 2023, Elsevier

    Dr Pascale Daran-Lapujade

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

    Article • mBio, October 2022, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • October 2021, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

  8. Top-down, knowledge-based genetic reduction of yeast central carbon metabolism

    Article • August 2021, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

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

    Article • Nucleic Acids Research, January 2021, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • Applied and Environmental Microbiology, July 2020, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • May 2020, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

  12. A supernumerary designer chromosome for modularin vivopathway assembly inSaccharomyces cerevisiae

    Article • February 2020, Cold Spring Harbor Laboratory Press

    Dr Pascale Daran-Lapujade

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

    Article • Molecular Omics, January 2020, Royal Society of Chemistry

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, December 2019, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

  15. Physiological responses of Saccharomyces cerevisiae to industrially relevant conditions: slow growth, low pH and high CO 2 levels

    Article • Biotechnology and Bioengineering, October 2019, Wiley

    Dr Pascale Daran-Lapujade

  16. Multiplex genome editing of microorganisms using CRISPR-Cas

    Article • FEMS Microbiology Letters, April 2019, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • mBio, October 2018, ASM Journals

    Dr Pascale Daran-Lapujade, Jan Michiels

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

    Article • FEMS Yeast Research, October 2018, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, June 2018, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • Nucleic Acids Research, November 2017, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, January 2017, Elsevier

    Dr Pascale Daran-Lapujade

  22. Pathway swapping: Toward modular engineering of essential cellular processes

    Article • Proceedings of the National Academy of Sciences, December 2016, Proceedings of the National Academy of Sciences

    Dr Pascale Daran-Lapujade

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

    Article • Microbial Cell Factories, June 2016, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

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

    Article • Applied and Environmental Microbiology, May 2016, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • Microbial Cell, November 2015, Shared Science Publishers OG

    Prof Jack T Pronk, Dr Pascale Daran-Lapujade

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

    Article • Microbial Cell Factories, September 2015, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Eukaryotic Cell, June 2015, ASM Journals

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Applied and Environmental Microbiology, June 2015, ASM Journals

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • FEMS Yeast Research, March 2015, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, March 2015, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, February 2015, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

  32. Proteome Adaptation of Saccharomyces cerevisiae to Severe Calorie Restriction in Retentostat Cultures

    Article • Journal of Proteome Research, August 2014, American Chemical Society (ACS)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • FEMS Yeast Research, June 2014, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Applied and Environmental Microbiology, May 2014, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, May 2014, Elsevier

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • FEMS Yeast Research, October 2013, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Applied and Environmental Microbiology, July 2013, ASM Journals

    Dr Pascale Daran-Lapujade

  38. amdSYM , a new dominant recyclable marker cassette for Saccharomyces cerevisiae

    Article • FEMS Yeast Research, February 2013, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Microbial Cell Factories, January 2013, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  40. Similar temperature dependencies of glycolytic enzymes: an evolutionary adaptation to temperature dynamics?

    Article • BMC Systems Biology, January 2012, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Microbial Cell Factories, January 2012, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Biochimica et Biophysica Acta (BBA) - Molecular Cell Research, December 2011, Elsevier

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • FEMS Yeast Research, September 2011, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Molecular BioSystems, January 2011, Royal Society of Chemistry

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  45. Predicting Metabolic Fluxes Using Gene Expression Differences As Constraints

    Article • IEEE/ACM Transactions on Computational Biology and Bioinformatics, January 2011, Institute of Electrical & Electronics Engineers (IEEE)

    Dr Pascale Daran-Lapujade

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

    Article • Nature Communications, December 2010, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  47. Measuring enzyme activities under standardized in vivo-like conditions for systems biology

    Article • European Journal of Biochemistry, January 2010, Wiley

    Dr Pascale Daran-Lapujade

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

    Article • Applied and Environmental Microbiology, December 2009, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • PROTEOMICS, October 2009, Wiley

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Applied and Environmental Microbiology, September 2009, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, August 2009, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Applied and Environmental Microbiology, July 2009, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • Microbiology, April 2009, Society for General Microbiology

    Dr Pascale Daran-Lapujade

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

    Article • BMC Genomics, January 2009, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  55. Dynamics of Glycolytic Regulation during Adaptation of Saccharomyces cerevisiae to Fermentative Metabolism †

    Article • Applied and Environmental Microbiology, July 2008, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • Microbiology, June 2008, Society for General Microbiology

    Dr Pascale Daran-Lapujade

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

    Article • Microbiology, January 2008, Society for General Microbiology

    Dr Pascale Daran-Lapujade

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

    Article • BMC Genomics, January 2008, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • BMC Genomics, January 2008, Springer Science + Business Media

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  60. Chemostat-Based Micro-Array Analysis in Baker's Yeast

    Article • January 2008, Elsevier

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Microbiology, November 2007, Society for General Microbiology

    Dr Pascale Daran-Lapujade

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

    Article • Applied and Environmental Microbiology, October 2007, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • Proceedings of the National Academy of Sciences, October 2007, Proceedings of the National Academy of Sciences

    Dr Pascale Daran-Lapujade

  64. Acclimation of Saccharomyces cerevisiae to Low Temperature: A Chemostat-based Transcriptome Analysis

    Article • Molecular Biology of the Cell, September 2007, American Society for Cell Biology (ASCB)

    Dr Pascale Daran-Lapujade

  65. Control of the Glycolytic Flux in Saccharomyces cerevisiae Grown at Low Temperature: A MULTI-LEVEL ANALYSIS IN ANAEROBIC CHEMOSTAT CULTURES

    Article • Journal of Biological Chemistry, February 2007, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Pascale Daran-Lapujade

  66. Exploiting combinatorial cultivation conditions to infer transcriptional regulation

    Article • BMC Genomics, January 2007, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

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

    Article • Molecular Systems Biology, September 2006, EMBO

    Dr Pascale Daran-Lapujade

  68. Proteome analysis of yeast response to various nutrient limitations

    Article • Molecular Systems Biology, May 2006, EMBO

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

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

    Article • Microbiology, May 2005, Society for General Microbiology

    Dr Pascale Daran-Lapujade

  70. Two-dimensional Transcriptome Analysis in Chemostat Cultures: COMBINATORIAL EFFECTS OF OXYGEN AVAILABILITY AND MACRONUTRIENT LIMITATION IN SACCHAROMYCES CEREVISIAE

    Article • Journal of Biological Chemistry, October 2004, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Pascale Daran-Lapujade

  71. Nanoarrays:  A Method for Performing Enzymatic Assays

    Article • Analytical Chemistry, July 2004, American Chemical Society (ACS)

    Dr Pascale Daran-Lapujade, Prof Jack T Pronk

  72. Glutamate as an inhibitor of phosphoenolpyruvate carboxylase activity in Corynebacterium glutamicum

    Article • Journal of Industrial Microbiology & Biotechnology, May 2004, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

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

    Article • Applied and Environmental Microbiology, April 2004, ASM Journals

    Dr Pascale Daran-Lapujade

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

    Article • FEMS Yeast Research, December 2003, Oxford University Press (OUP)

    Dr Pascale Daran-Lapujade

  75. Role of Transcriptional Regulation in Controlling Fluxes in Central Carbon Metabolism of Saccharomyces cerevisiae: A CHEMOSTAT CULTURE STUDY

    Article • Journal of Biological Chemistry, November 2003, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Pascale Daran-Lapujade

  76. Reproducibility of Oligonucleotide Microarray Transcriptome Analyses. AN INTERLABORATORY COMPARISON USING CHEMOSTAT CULTURES OF SACCHAROMYCES CEREVISIAE

    Article • Journal of Biological Chemistry, July 2002, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Pascale Daran-Lapujade

  77. Flexibility of the metabolism of Corynebacterium glutamicum 2262, a glutamic acid-producing bacterium, in response to temperature upshocks

    Article • Journal of Industrial Microbiology & Biotechnology, June 2002, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

  78. Flexibility of the metabolism of Corynebacterium glutamicum 2262, a glutamic acid-producing bacterium, in response to temperature upshocks

    Article • Journal of Industrial Microbiology & Biotechnology, June 2002, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

  79. Chemostat cultivation and genome expression analysis of yeast

    Article • BMC News and views, June 2001, Springer Science + Business Media

    Dr Pascale Daran-Lapujade

  80. An improved temperature-triggered process for glutamate production with Corynebacterium glutamicum

    Article • Enzyme and Microbial Technology, November 1999, Elsevier

    Dr Pascale Daran-Lapujade

  81. Glutamate Excretion as a Major Kinetic Bottleneck for the Thermally Triggered Production of Glutamic Acid by Corynebacterium glutamicum

    Article • Metabolic Engineering, July 1999, Elsevier

    Dr Pascale Daran-Lapujade

  82. Relating transcription factors, modules of genes and cultivation conditions in Saccharomyces cerevisiae

    Article • Institute of Electrical & Electronics Engineers (IEEE)

    Dr Pascale Daran-Lapujade