All Stories

  1. Removal of antimicrobial resistance determinants from wastewater: Role of capacity overloading and treatment technology in wastewater treatment plants

    Article • Journal of Environmental Management, December 2025, Elsevier

    Dr Jan-Ulrich Kreft

  2. Inferring antibiotic resistance selection in the environment can be confounded by correlations between resistance genes and unrelated functional traits

    Article • October 2025, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  3. A multi-endpoint approach to ecotoxicological assessment of wastewater polluted rivers using zebrafish

    Article • Environmental Research, October 2025, Elsevier

    Dr Jan-Ulrich Kreft

  4. Dissecting the physics of bacterial biofilms with agent-based simulations

    Article • Current Opinion in Solid State and Materials Science, July 2025, Elsevier

    Dr Jan-Ulrich Kreft

  5. Impact of Wastewater Treatment Plant Capacity and Treatment Process on the Dynamics of Antimicrobial Resistance Determinants

    Article • March 2025, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  6. Understanding Antibiotic Resistance in a Lake: A Study of Contamination and Health Risks

    Article • The Science of The Total Environment, June 2024, Elsevier

    DR OSIRIS DIAZ TORRES, Dr Jan-Ulrich Kreft

  7. Modelling the impact of wastewater flows and management practices on antimicrobial resistance in dairy farms

    Article • npj Antimicrobials and Resistance, May 2024, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  8. Is it selfish to be filamentous in biofilms? Individual-based modeling links microbial growth strategies with morphology using the new and modular iDynoMiCS 2.0

    Article • PLoS Computational Biology, February 2024, PLOS

    Dr Jan-Ulrich Kreft

  9. Mapping the scarcity of data on antibiotics in natural and engineered water environments across India

    Article • Frontiers in Antibiotics, February 2024, Frontiers

    Dr Jan-Ulrich Kreft

  10. Flagellar interference with plasmid uptake in biofilms: a joint experimental and modeling study

    Article • Applied and Environmental Microbiology, January 2024, ASM Journals

    Dr Jan-Ulrich Kreft

  11. Is it selfish to be filamentous in biofilms? Individual-based modeling links microbial growth strategies with morphology using the new and modular iDynoMiCS 2.0

    Article • June 2023, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  12. Plasmid permissiveness of wastewater microbiomes can be predicted from 16S rRNA sequences by machine learning

    Article • Bioinformatics, June 2023, Oxford University Press (OUP)

    Dr Jan-Ulrich Kreft

  13. Comment on “Different microplastics distinctively enriched the antibiotic resistance genes in anaerobic sludge digestion through shifting specific hosts and promoting horizontal gene flow by Luo et al. [Water Research 228 (2023), 119356]”

    Article • Water Research, May 2023, Elsevier

    Dr Jan-Ulrich Kreft

  14. The role of mathematical modelling in understanding prokaryotic predation

    Article • Frontiers in Microbiology, December 2022, Frontiers

    Dr Jan-Ulrich Kreft

  15. Antimicrobial resistance in dairy slurry tanks: A critical point for measurement and control

    Article • Environment International, November 2022, Elsevier

    Dr Jan-Ulrich Kreft

  16. Plasmid Permissiveness of Wastewater Microbiomes can be Predicted from 16S rDNA sequences by Machine Learning

    Article • July 2022, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  17. Antimicrobial resistance in dairy slurry tanks: a critical point for measurement and control

    Article • February 2022, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  18. Predation Strategies of the Bacterium Bdellovibrio bacteriovorus Result in Overexploitation and Bottlenecks

    Article • Applied and Environmental Microbiology, January 2022, ASM Journals

    Dr Jan-Ulrich Kreft

  19. Experimental evolution of Pseudomonas putida under silver ion versus nanoparticle stress

    Article • Environmental Microbiology, December 2021, Wiley

    Dr Jan-Ulrich Kreft

  20. EMBRACE-WATERS statement: Recommendations for reporting of studies on antimicrobial resistance in wastewater and related aquatic environments

    Article • One Health, December 2021, Elsevier

    Dr Jan-Ulrich Kreft

  21. Towards a general model for predicting minimal metal concentrations co-selecting for antibiotic resistance plasmids

    Article • Environmental Pollution, April 2021, Elsevier

    Dr Jan-Ulrich Kreft

  22. Comparison of antibiotic-resistant bacteria and antibiotic resistance genes abundance in hospital and community wastewater: A systematic review

    Article • The Science of The Total Environment, November 2020, Elsevier

    Dr Jan-Ulrich Kreft

  23. Damage Repair versus Aging in an Individual-Based Model of Biofilms

    Article • mSystems, October 2020, ASM Journals

    Dr Jan-Ulrich Kreft

  24. Experimental Evolution ofPseudomonas putidaunder Silver Ion versus Nanoparticle Stress

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  25. Towards a general model for predicting minimal metal concentrations co-selecting for antibiotic resistance plasmids

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  26. Toward Engineering Biosystems With Emergent Collective Functions

    Article • Frontiers in Bioengineering and Biotechnology, June 2020, Frontiers

    Dr Jan-Ulrich Kreft

  27. A generalised model for generalised transduction: the importance of co-evolution and stochasticity in phage mediated antimicrobial resistance transfer

    Article • FEMS Microbiology Ecology, June 2020, Oxford University Press (OUP)

    Dr Jan-Ulrich Kreft

  28. Evolutionary causes and consequences of metabolic division of labour: why anaerobes do and aerobes don’t

    Article • Current Opinion in Biotechnology, April 2020, Elsevier

    Dr Jan-Ulrich Kreft

  29. Dual Predation by Bacteriophage and Bdellovibrio bacteriovorus Can Eradicate Escherichia coli Prey in Situations where Single Predation Cannot

    Article • Journal of Bacteriology, February 2020, ASM Journals

    Dr Jan-Ulrich Kreft

  30. Antimicrobial and ultrastructural properties of root canal filling materials exposed to bacterial challenge

    Article • Journal of Dentistry, February 2020, Elsevier

    Dr Jan-Ulrich Kreft

  31. Potentiation of curing by a broad-host-range self-transmissible vector for displacing resistance plasmids to tackle AMR

    Article • PLOS One, January 2020, PLOS

    Dr Jan-Ulrich Kreft

  32. Damage Repair Versus Aging in Biofilms

    Article • January 2020, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  33. Predation strategies of the bacterium Bdellovibrio bacteriovorus result in bottlenecks, overexploitation, minimal and optimal prey sizes

    Article • April 2019, Cold Spring Harbor Laboratory Press

    Dr Jan-Ulrich Kreft

  34. Evolutionary strategies of Bdellovibrio bacteriovorus predators and prey

    Article • Access Microbiology, March 2019, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  35. The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling

    Article • January 2019, Frontiers

    Dr Jan-Ulrich Kreft

  36. Editorial: The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling

    Article • Frontiers in Microbiology, November 2018, Frontiers

    Dr Jan-Ulrich Kreft

  37. Elucidating the impact of micro-scale heterogeneous bacterial distribution on biodegradation

    Article • Advances in Water Resources, January 2018, Elsevier

    Dr Jan-Ulrich Kreft

  38. Editorial: The microbiome as a source of new enterprises and job creation

    Article • Microbial Biotechnology, December 2017, Wiley

    Dr Jan-Ulrich Kreft

  39. From Genes to Ecosystems in Microbiology: Modeling Approaches and the Importance of Individuality

    Article • Frontiers in Microbiology, November 2017, Frontiers

    Dr Jan-Ulrich Kreft

  40. Reducing discrepancies between 3D and 2D simulations due to cell packing density

    Article • Journal of Theoretical Biology, June 2017, Elsevier

    Dr Jan-Ulrich Kreft

  41. Time-resolved toxicity study reveals the dynamic interactions between uncoated silver nanoparticles and bacteria

    Article • Nanotoxicology, May 2017, Taylor & Francis

    Dr Jan-Ulrich Kreft

  42. New, rapid method to measure dissolved silver concentration in silver nanoparticle suspensions by aggregation combined with centrifugation

    Article • Journal of Nanoparticle Research, August 2016, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  43. Advancing microbial sciences by individual-based modelling

    Article • Nature Reviews Microbiology, June 2016, Nature

    Dr Jan-Ulrich Kreft

  44. Challenges in microbial ecology: building predictive understanding of community function and dynamics

    Article • The ISME Journal, March 2016, Nature

    Dr Jan-Ulrich Kreft, Dr Ottavio A Croze, Prof. Markus Ralser, Babak Momeni

  45. α-1-Antitrypsin variants and the proteinase/antiproteinase imbalance in chronic obstructive pulmonary disease

    Article • AJP Lung Cellular and Molecular Physiology, November 2014, American Physiological Society

    Dr Jan-Ulrich Kreft

  46. Repair rather than segregation of damage is the optimal unicellular aging strategy

    Article • BMC Biology, August 2014, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  47. Mathematical Modeling of Microbial Ecology: Spatial Dynamics of Interactions in Biofilms and Guts

    Article • April 2014, ASM Journals

    Dr Jan-Ulrich Kreft

  48. Mathematical Modeling of Plasmid Dynamics

    Article • January 2014, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  49. Mighty small: Observing and modeling individual microbes becomes big science

    Article • Proceedings of the National Academy of Sciences, November 2013, Proceedings of the National Academy of Sciences

    Dr Jan-Ulrich Kreft

  50. Bacterial colonies on plant leaves

    Article • PLOS One, October 2013, PLOS

    Dr Jan-Ulrich Kreft

  51. Exploiting additive and subtractive patterning for spatially controlled and robust bacterial co-cultures

    Article • Soft Matter, January 2012, Royal Society of Chemistry

    Dr Jan-Ulrich Kreft

  52. Growth dependence of conjugation explains limited plasmid invasion in biofilms: an individual-based modelling study

    Article • Environmental Microbiology, September 2011, Wiley

    Dr Jan-Ulrich Kreft

  53. A Multi-scale Agent-Based Distributed Simulation Framework for Groundwater Pollution Management

    Article • September 2011, Institute of Electrical & Electronics Engineers (IEEE)

    Dr Jan-Ulrich Kreft

  54. iDynoMiCS: next-generation individual-based modelling of biofilms

    Article • Environmental Microbiology, March 2011, Wiley

    Dr Jan-Ulrich Kreft

  55. Protein Nanoarrays for High-Resolution Patterning of Bacteria on Gold Surfaces

    Article • January 2011, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  56. Cooperation and cheating in microbial exoenzyme production - Theoretical analysis for biotechnological applications

    Article • Biotechnology Journal, June 2010, Wiley

    Dr Jan-Ulrich Kreft

  57. Generalized Voronoi Tessellation as a Model of Two-dimensional Cell Tissue Dynamics

    Article • The Bulletin of Mathematical Biophysics, January 2010, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  58. Conditions for partial nitrification in biofilm reactors and a kinetic explanation

    Article • Biotechnology and Bioengineering, June 2009, Wiley

    Dr Jan-Ulrich Kreft

  59. A mathematical model for growth and osmoregulation in halophilic bacteria

    Article • Microbiology, October 2008, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  60. Use of Game-Theoretical Methods in Biochemistry and Biophysics

    Article • Journal of Biological Physics, April 2008, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  61. Microbial motility involvement in biofilm structure formation – a 3D modelling study

    Article • Water Science & Technology Water Supply, April 2007, IWA Publishing

    Dr Jan-Ulrich Kreft

  62. Does efficiency sensing unify diffusion and quorum sensing?

    Article • Nature Reviews Microbiology, March 2007, Nature

    Dr Jan-Ulrich Kreft

  63. Dynamics of development and dispersal in sessile microbial communities: examples from Pseudomonas aeruginosa and Pseudomonas putida model biofilms

    Article • FEMS Microbiology Letters, August 2006, Oxford University Press (OUP)

    Dr Jan-Ulrich Kreft

  64. Prediction of comammox, a complete ammonia oxidizing bacterium

    Article • Trends in Microbiology, May 2006, Elsevier

    Dr Jan-Ulrich Kreft

  65. Cell division theory and individual-based modeling of microbial lag

    Article • International Journal of Food Microbiology, June 2005, Elsevier

    Dr Jan-Ulrich Kreft

  66. Individual-based modelling of growth and migration of in hens' eggs

    Article • International Journal of Food Microbiology, April 2005, Elsevier

    Dr Jan-Ulrich Kreft

  67. The evolution of groups of cooperating bacteria and the growth rate versus yield trade-off

    Article • Microbiology, March 2005, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  68. Conflicts of interest in biofilms

    Article • Biofilms, October 2004, Cambridge University Press

    Dr Jan-Ulrich Kreft

  69. Biofilms promote altruism

    Article • Microbiology, August 2004, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  70. Particle-Based Multidimensional Multispecies Biofilm Model

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

    Dr Jan-Ulrich Kreft

  71. Article • Antonie van Leeuwenhoek, January 2002, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  72. Individual-based modelling of biofilms

    Article • Microbiology, November 2001, Society for General Microbiology

    Dr Jan-Ulrich Kreft, Mark van loosdrecht

  73. BacSim, a simulator for individual-based modelling of bacterial colony growth

    Article • Microbiology, December 1998, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  74. Specificity of O -demethylation in extracts of the homoacetogenic Holophaga foetida and demethylation kinetics measured by a coupled photometric assay

    Article • Archives of Microbiology, May 1997, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  75. Effects of alternative methyl group acceptors on the growth energetics of the O-demethylating anaerobe Holophaga foetida

    Article • Microbiology, April 1997, Society for General Microbiology

    Dr Jan-Ulrich Kreft

  76. O -Demethylation by the Homoacetogenic Anaerobe Holophaga Foetida Studied by a New Photometric Methylation Assay Using Electrochemically Produced Cob(I)Alamin

    Article • FEBS Journal, December 1994, Wiley

    Dr Jan-Ulrich Kreft

  77. Holophaga foetida gen. nov., sp. nov., a new, homoacetogenic bacterium degrading methoxylated aromatic compounds

    Article • Archives of Microbiology, July 1994, Springer Science + Business Media

    Dr Jan-Ulrich Kreft

  78. Demethylation and degradation of phenylmethylethers by the sulfide-methylating homoacetogenic bacterium strain TMBS 4

    Article • Archives of Microbiology, April 1993, Springer Science + Business Media

    Dr Jan-Ulrich Kreft