In preparation / under review

  1. Asynchronous abundance fluctuations can drive giant genotype frequency fluctuations
    Joao A Ascensao, Kristen Lok, Oskar Hallatschek
    bioRxiv 581776
  2. Lineage frequency time series reveal elevated levels of genetic drift in SARS-CoV-2 transmission in England
    QinQin Yu, Joao Ascensao*, Takashi Okada*, The COVID-19 Genomics UK (COG-UK) consortium, Olivia Boyd, Erik Volz, Oskar Hallatschek
    bioRxiv 517390

Published / in press

  1. Rediversification Following Ecotype Isolation Reveals Hidden Adaptive Potential
    Joao A Ascensao, Jonas Denk, Kristen Lok, QinQin Yu, Kelly M Wetmore, Oskar Hallatschek
    Current Biology, 2024 – Dispatch piece
  2. Proliferating Active Matter
    Oskar Hallatschek, Sujit S Datta, Knut Drescher, Jörn Dunkel, Jens Elgeti, Bartek Waclaw, Ned S Wingreen
    Nature Reviews Physics, 2023
  3. Impact of Crowding on the diversity of expanding populations
    Carl F Schreck, Diana Fusco, Yuya Karita, Stephen Martis, Jona Kayser, Marie-Cécilia Duvernoy, Oskar Hallatschek
    Proc. Natl. Acad. Sci., 2023
  4. Quantifying the local adaptive landscape of a nascent bacterial community
    Joao A Ascensao, Kelly M Wetmore, Benjamin H Good, Adam P Arkin, Oskar Hallatschek
    Nature Communications (2023) 14:248
  5. Evolutionary rescue of resistant mutants is governed by a balance between radial expansion and selection in compact populations
    Serhii Aif, Nico Appold, Lucas Kampman, Oskar Hallatschek, Jona Kayser
    Nature Communications (2022) 13:7916
  6. Self-consistent dispersal puts tight constraints on the spatio-temporal organization of species-rich metacommunities
    Jonas Denk, Oskar Hallatschek
    Proc. Natl. Acad. Sci., 2022
  7. Scale-dependent tipping points of bacterial colonization resistance
    Yuya Karita, David T. Limmer, Oskar Hallatschek
    Proc. Natl. Acad. Sci., 2022
  8. Dynamic sampling bias and overdispersion induced by skewed offspring distributions
    Takashi Okada, Oskar Hallatschek
    Genetics, 2021
  9. Bacterial filamentation drives colony chirality
    Andrés Aranda-Díaz, Cecilia Rodrigues, Alexandra Grote, Jiawei Sun, Carl Schreck, Oskar Hallatschek, Anton Souslov, Wolfram Möbius, Kerwyn Casey Huang
    mBio, 2021
  10. Mutability of demographic noise in microbial range expansions
    QinQin Yu, Matti Gralka, Marie-Cécilia Duvernoy, Megan Sousa, Arbel Harpak, Oskar Hallatschek
    ISME Journal, 2021
    See also the blog post in the Nature Portfolio Microbiology Community.
  11. Genealogical structure changes as range expansions transition from pushed to pulled
    Gabriel Birzu, Oskar Hallatschek, Kirill S Korolev
    Proc. Natl. Acad. Sci., 2021
  12. Instance segmentation of densely packed cells using a hybrid model of U-net and mask R-CNN
    Tomasz Konopczyński, Ron Heiman, Piotr Woźnicki, Paweł Gniewek, Marie-Cécilia Duvernoy, Oskar Hallatschek, Jürgen Hesser
    International Conference on Artificial Intelligence and Soft Computing, 626-635 (2020)
  13. Chaos may lurk under a cloak of neutrality
    Jonas Denk, Stephen Martis, Oskar Hallatschek
    Proc. Natl. Acad. Sci., 2020
  14. The impact of long-range dispersal on gene surfing
    Jayson Paulose, Oskar Hallatschek
    Proc. Natl. Acad. Sci., 2020
  15. Genetic drift in range expansions is very sensitive to density feedback in dispersal and growth
    Gabriel Birzu, Sakib Matin, Oskar Hallatschek, Kirill Korolev
    Ecology Letters, 2019
    bioRxiv 565986
  16. Biomechanical feedback strengthens jammed cellular packings
    P Gniewek, CF Schreck, O Hallatschek
    Physical Review Letters 122, 208102 (2019).
    arXiv:1810.01999
  17. Environmental disorder can tip the population genetics of range expansions
    M. Gralka, O. Hallatschek
    eLife (2019); 8:e44359
    bioRxiv 494955
  18. Evolutionary dynamics of bacteria in the gut microbiome within and across hosts
    Nandita R. Garud*, Benjamin H. Good*, Oskar Hallatschek, Katherine S. Pollard
    PLOS Biology (2019) 17(1): e3000102.
  19. Collective motion conceals fitness differences in crowded cellular populations
    Jona Kayser, Carl Schreck, Matti Gralka, Diana Fusco, Oskar Hallatschek
    Nature Ecology & Evolution (2019) 3 (1), 125
    bioRxiv 267286; doi: https://doi.org/10.1101/267286
    See also the Research Highlight “Fighting Fit” in Nature Physics.
  20. Spatial soft sweeps: patterns of adaptation in populations with long-range dispersal
    Jason Paulose, Joachim Hermisson, Oskar Hallatschek
    PLoS Genetics (2019) 15(2): e1007936
  21. Liquid Transport through Packings of Elastic Shells
    Pawel Gniewek, Oskar Hallatschek
    Physical Review E (2019) 99 (2), 023103
    arXiv:1807.00249
  22. Effective models and the search for quantitative principles in microbial evolution
    Benjamin Good, Oskar Hallatschek
    Current Opinion in Microbiology (2018) 45 203.
  23. Adaptation limits ecological diversification and promotes ecological tinkering during the competition for substitutable resources
    Benjamin H Good, Stephen Martis, Oskar Hallatschek
    Proc. Natl. Acad. Sci. 201807530 (2018); DOI:10.1073/pnas.1807530115
    bioRxiv 292821 (2018); doi: https://doi.org/10.1101/292821
  24. Selection-like biases emerge in population models with recurrent jackpot events
    Oskar Hallatschek
    Genetics (2018) 210:3 1053-1073.
  25. Emergence of evolutionary driving forces in pattern-forming microbial populations.
    Jona Kayser, Carl Schreck, Yu Qinqin, Matti Gralka, O. Hallatschek.
    Philosophical Transactions B (2018) 373 20170106; DOI: 10.1098/rstb.2017.0106.
  26. Mechano-chemostats to study the effects of compressive stress on yeast.
    LJ Holt, O. Hallatschek, M Delarue
    Methods in cell biology (2018) 147, 215-231
  27. Fluctuations uncover a distinct class of traveling waves
    Gabriel     Birzu    , Oskar Hallatschek, Kirill S. Korolev
    Proc. Natl. Acad. Sci 115 (16) E3645-E3654 (2018); DOI:10.1073/pnas.1715737115
    bioRxiv 183806; doi: https://doi.org/10.1101/183806
  28. SCWISh network is essential for survival under mechanical pressure
    Morgan Delarue, Gregory Poterewicz, Ori Hoxha, Jessica Choi, Wonjung Yoo, Jona Kayser, Liam Holt*, Oskar Hallatschek*
    SCWISh network is essential for survival under mechanical pressure
    Proc. Natl. Acad. Sci. 114 (51) 13465-13470 (2017).
    bioRxiv 150789 (2017); doi: https://doi.org/10.1101/150789 
  29. Minimal-assumption inference from population-genomic data
    Daniel B. Weissman, O. Hallatschek
    eLife (2017); 6:e24836
    bioRxiv 084459; doi: https://doi.org/10.1101/084459 
  30. Convection shapes the trade-off between antibiotic efficacy and the selection for resistance in spatial gradients
    Matti Gralka, Diana Fusco, Stephen Martis, O.Hallatschek
    Physical Biology 14 045011 (2017)
    arXiv:1701.05970 [q-bio.PE]
  31. Morgan Delarue, Daniel Weissman, Oskar Hallatschek
    A simple molecular mechanism explains multiple patterns of cell-size regulation
    PLoS ONE 12(8): e0182633 (2017).
  32. Fred Farrell, Matti Gralka, O. Hallatschek, Bartek Waclaw
    Mechanical interactions in bacterial colonies and the surfing probability of beneficial mutations
    Journal of the Royal Society Interface 14: 20170073 (2017).
    arXiv:1701.03337 [physics.bio-ph]
  33. Diana Fusco, Matti Gralka, Jona Kayser, Alex Anderson, O. Hallatschek
    Excess of mutational jackpot events in expanding populations  revealed by spatial Luria-Delbrück experiments
    Nature Communications 7:12760 (2016). doi:10.1038/ncomms12760. (bioRxiv) (pdf).
  34. Matti Gralka, Fabian Stiewe, Fred Farrell, Wolfram Möbius, Bartek Waclaw , O. Hallatschek
    Allele surfing promotes adaptation from standing variation
    Ecology Letters 19: 889-898 (2016). doi:10.1111/ele.12625. (bioRxiv) (pdf)
  35. Morgan Delarue, J. Hartung, Carl Schreck, Pawel Gniewek, L. Hu, S. Herminghaus, O. Hallatschek
    Self-driven Jamming in Growing Microbial Populations
    Nature Physics 12: 762-766 (2016). doi:10.1038/nphys3741.
    News and Views     by Ghokale and J. Gore
  36. Matti Gralka, Diana Fusco, O. Hallatschek
    Watching populations meltdown
    New and Notable, Biophysical Journal 111: 271-272 (2016). (pdf)
  37. C. Buss, C. Heussinger, O. Hallatschek
    Thermalized connectivity networks of jammed packings
    Soft Matter (2016). (arXiv)
  38. O. Hallatschek, L. Geyrhofer
    Collective Fluctuations in models of adaptation in the Dynamics of Adaptation and Other Traveling Waves
    Genetics 202: 1201-1227. (2016) Issue Highlight
    (    arXiv:1506.08683)
  39. R. S. Sedeh, K. Pan, M. R. Adendorff, O. Hallatschek, K.-J. Bathe, M. Bathe
    Computing Nonequilibrium Conformational Dynamics of Structured Nucleic Acid Assemblies
    Journal of Chemical Theory & Computation, 12:261 (2016).
  40. Acceleration of evolutionary spread by long-range dispersal
    O. Hallatschek, D. S. Fisher
    Proc. Natl. Acad. Sci. (2014)
    Commentary by Dirk Brockmann, Erreger auf der Überholspur, Physik Journal 14(1):20–21, 2015.
  41. D. B. Weissman, O. Hallatschek
    The rate of adaptation in large sexual populations with linear chromosomes.
    Genetics 196: 1167–1183. (2014)
  42. F. D. C. Farrell, O. Hallatschek, D. Marenduzzo, B. Waclaw
    Mechanically driven growth of quasi-two dimensional microbial colonies
    Phys. Rev. Lett. 111, 168101 111 (46), E4911–E4919 (2013)
  43. E. Martens*, Shashi Thutupalli*, Antoine Fourrière and O. Hallatschek
    Chimera states in mechanical oscillator networks
    Proc. Natl. Acad. Sci., Vol. 110(26):10563-10567 (2013)
    Press release MPG (D) , Princeton (EN)
    Commentary by Arkady Pikovsky and Michael Rosenblum. Die Schimäre lebt. Physik Journal, 12(8/9):18– 19, 2013.
  44. J.-F. Flot, B. Hespeels, X. Li, B. Noel, I. Arkhipova, E. G. J. Danchin, A. Hejnol, B. Henrissat, R. Koszul, J.-M. Aury, V. Barbe, R.-M. Bartélémy, J. Bast, G. A. Bazykin, O. Chabrol, A. Couloux, M. Da Rocha, C. Da Silva, E. Gladyshev, P. Gouret, O. Hallatschek, B. Hecox-Lea, K. Labadie, B. Lejeune, O. Piskurek, J. Poulain, F. Rodriguez, J. F. Ryan, O. A. Vakhrusheva, B. Wirth, I. Yushenova, M. Kellis, A. S. Kondrashov, D. B. Mark Welch, P. Pontarotti, J. Weissenbach, P. Wincker, O. Jaillon and K. Van Doninck
    Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga
    Nature, 500(7463): 453-457 , 2013.
  45. R. A. Neher and O. Hallatschek
    Genealogies in rapidly adapting populations
    Proc. Natl. Acad. Sci., 110(2): 437-442 , 2013.
  46. M. Meschede and O. Hallatschek
    Local disalignment can promote coherent collective motion through rapid information transfer
    New Journal of Physics 15:045027, 2013.
  47. J. Nullmeier and O. Hallatschek
    The coalescent in boundary-limited range expansions
    Evolution 67-5:1307-1320, 2013.
  48. L. Geyrhofer and O. Hallatschek
    Stochastic delocalization of finite populations
    J. Stat. Mech. Theor. Exp., P01007, 2013.
  49. O. Hallatschek
    Bacteria evolve to go against the grain
    Physics 5 93 (2012).
  50. K. S. Korolev, M. J. I. Müller, N. Karahan, A. W. Murray, O. Hallatschek, and D. R. Nelson
    Selective sweeps in growing microbial colonies
    Phys. Biol. 9 026008 (2012).
  51. R. Lehe, O. Hallatschek and L. Peliti
    The rate of beneficial mutations surfing on the wave of a range expansion
    PLoS Comput Biol 8(3): e1002447 (2012).
  52. Good, B. H., Rouzine I. M. , Balick D. J., Hallatschek O., and M. M. Desai
    Distribution of fixed beneficial mutations and the rate of adaptation in asexual populations.
    Proc. Natl. Acad. Sci., 109(13): 4950-4955 , 2012.
    see commentary article by M. Lässig
  53. Erik A. Martens, R. Kostadinov, C. C. Maley and O. Hallatschek
    Spatial structure increases the waiting for cancer
    New Journal of Physics 13, 115014 (2011).
    Focus Issue “Physics of Cancer”.
  54. Erik A. Martens and O. Hallatschek
    Interfering waves of adaptation promote spatial mixing
    Genetics 189:3, 1045-1060 (2011)
  55. O. Hallatschek
    “Noise driven evolutionary waves”
    PLoS Comput Biol 7(3): e1002005, 2011
  56. O. Hallatschek
    “The noisy edge of traveling waves”
    Proc. Natl. Acad. Sci., 108(5): 1783-1787, 2011
    see commentary article by D. S. Fisher
  57. O. Hallatschek and D. R. Nelson
    “Life at the front of an expanding population”
    Evolution 64:193–206, 2010.
  58. K.S. Korolev, M. Avlund, O. Hallatschek, and D. R. Nelson
    “Genetic demixing and evolution in linear stepping stone models”
    Reviews of Modern Physics 82, 1691–1718, 2010.
    Featured in Nature Physics.
  59. O. Hallatschek and K. S. Korolev
    “Fisher waves in the strong noise limit”
    Phys. Rev. Lett 103:108103, 2009.
  60. O. Hallatschek and D. R. Nelson
    “Population Genetics and Range Expansions”
    Physics Today 62:42-47, 2009.
  61. B. Obermayer, W. Möbius, O. Hallatschek, E. Frey and K. Kroy
    “A freely relaxing polymer remembers how it was straightened”
    Phys. Rev. E., 79:021804-021817, 2009.
  62. J. Glaser, O. Hallatschek and K. Kroy
    “Dynamic structure factor of a stiff polymer in a glassy solution”
    Eur. Phys. J. E, 26(1):123-136, 2008.
  63. O. Hallatschek and D. R. Nelson
    “Gene surfing in expanding populations”
    Theor. Pop. Biol., 37(1):158-170, 2008.
  64. O. Hallatschek, P. Hersen, S. Ramanathan and D. R. Nelson
    “Genetic drift at expanding frontiers promotes gene segregation”
    Proc. Natl. Acad. Sci., 104(50):19926-19930, 2007.
    Featured in Trends in Ecology & Evolution.
  65. O. Hallatschek, E. Frey and K. Kroy
    Tension dynamics in semiflexible polymers. I/II
    Phys. Rev. E, 75(3):14, 2007. / Phys. Rev. E, 75(3):20, 2007.
  66. B. Obermayer, O. Hallatschek, E. Frey and K. Kroy
    “Stretching dynamics of semiflexible polymers”
    Eur. Phys. J. E, 23(4):375-388, 2007.
  67. B. Obermayer and O. Hallatschek
    “Coupling of transverse and longitudinal response in stiff polymers”
    Phys. Rev. Lett., 99(9):4, 2007.
  68. T. Munk, O. Hallatschek, C. H. Wiggins and E. Frey
    “Dynamics of semiflexible polymers in a flow field”
    Phys. Rev. E, 74(4):11, 2006.
  69. O. Hallatschek, E. Frey and K. Kroy
    “Propagation and relaxation of tension in stiff polymers”
    Phys. Rev. Lett., 94(7):4, 2005.
  70. O. Hallatschek, E. Frey and K. Kroy
    “Overdamped stress relaxation in buckled rods”
    Phys. Rev. E, 70(3):19, 2004.
  71. L. Le Goff, O. Hallatschek, E. Frey and F. Amblard
    “Tracer studies on f-actin fluctuations”
    Phys. Rev. Lett., 89(25):4, 2002.

Doctoral Thesis

  1. O. Hallatschek,
    “Semiflexible Polymer Dynamics”
    Shaker, 2005. ISBN:978-3-8322-3729-5.

Hallatschek Lab @ Berkeley and Leipzig