University of Vienna

Faculty of Mathematics
Oskar-Morgenstern-Platz 1
A-1090 Vienna, Austria

Max F. Perutz Laboratories
Dr. Bohrgasse 9
A-1030 Vienna, Austria

    Joachim Hermisson
    Himani Sachdeva
    Jitka Polechová



    Software (msms)



Press & Public

Data Protection (DSGVO)




Joachim Hermisson - Publications

Home    Publications    CV    Teaching     

Evolutionary Biology

  • Fulgione A., Neto C., Elfarargi A.F., Tergemina E., Ansari S., Göktay M., Dinis H., Döring N., Flood P.J., Rodriguez-Pacheco S., Walden N., Koch M.A., Roux F., Hermisson J., and Hancock A.M. (2022)
    Parallel reduction in flowering time from de novo mutations enable evolutionary rescue in colonizing lineages.
    Nature Communications 13, 1461. (doi)

  • Johnson K.D., Beiglböck M., Eder M., Grass A., Hermisson J., Pammer G., Polechová J., Toneian D., and Wölfl B. (2021)
    Disease momentum: Estimating the reproduction number in the presence of superspreading.
    Infectious Disease Modelling 6, 706-728. (doi)

  • Barghi N., Hermisson J., and Schlötterer C. (2020)
    Polygenic adaptation: a unifying framework to understand positive selection.
    Nature Reviews Genetics 21, 769-781. (doi)

  • Setter D., Mousset S., Cheng X., Nielsen R., DeGiorgio M., and Hermisson J. (2020)
    VolcanoFinder: genomic scans for adaptive introgression.
    PLoS genetics 16 (6), e1008867. (doi)

  • Blanckaert A., Bank C., and Hermisson J. (2020)
    The limits to parapatric speciation 3: Evolution of strong reproductive isolation in presence of gene flow despite limited ecological differentiation.
    Phil. Trans. R. Soc. B 375: 20190532. (doi)

  • Servedio M.R., and Hermisson J. (2020)
    The evolution of partial reproductive isolation as an adaptive optimum.
    Evolution 74(1): 4-14 (doi)

  • Feder A.F., Pennings P.S., Hermisson J., and Petrov D.A. (2019)
    Evolutionary dynamics in structured populations under strong population genetic forces.
    G3: Genes, Genomes, Genetics 9(10): 3395-3407 (doi)

  • Pisa H., Hermisson J., and Polechová J. (2019)
    The influence of fluctuating population densities on evolutionary dynamics.
    Evolution 73(7): 1341-1355 (doi)

  • Barton N., Hermisson J. and Nordborg M. (2019)
    Population Genetics: Why structure matters.
    eLife 2019(8): e45380. (doi)

  • Höllinger I., Pennings P.S. and Hermisson J. (2019)
    Polygenic adaptation: From sweeps to subtle frequency shift.
    PLoS Genetics 15(3): e1008035. (doi)

  • Paulose J., Hermisson J. and Hallatschek O. (2019)
    Spatial soft sweeps: Patterns of adaptation in populations with long-range dispersal.
    PLoS Genetics 15(2): e1007936. (doi)

  • Blanckaert A. and Hermisson J. (2018)
    The limits to parapatric speciation II: Strengthening a preexisting genetic barrier to gene flow in parapatry.
    Genetics 209(1): 241-254. (doi)

  • Fulgione A., Koornneef M., Roux F., Hermisson J. and Hancock A.M. (2017)
    Madeiran Arabidopsis thaliana reveals ancient long-range colonization and claries demography in Eurasia.
    Molecular Biology and Evolution 35(3): 564-574. (doi)

  • Hermisson J. and Pennings P.S. (2017)
    Soft sweeps and beyond: understanding the patterns and probabilities of selection footprints under rapid adaptation.
    Methods in Ecology and Evolution 8(6): 700-716. (doi)
  • Höllinger I. and Hermisson J. (2017)
    Bounds to parapatric speciation: A Dobzhansky-Muller incompability model involving autosomes, X chromosomes and mitochondria.
    Evolution 71(5): 1366-1380. (doi)

  • Rettelbach A., Servedio M.R. and Hermisson J. (2016)
    Speciation in peripheral populations: effects of drift load and mating systems.
    Journal of Evolutionary Biology 29(5): 1073-1090. (doi)

  • Uecker H. and Hermisson J. (2016)
    The Role of Recombination in Evolutionary Rescue.
    Genetics 202(2): 721-732. (doi)

  • Tobler R., Hermisson J., and Schlötterer C. (2015)
    Parallel trait adaptation across opposing thermal environments in experimental Drosophila melanogaster populations.
    Evolution 69(7): 1745-1759. (doi)

  • Uecker H., Setter D., and Hermisson J. (2015)
    Adaptive gene introgression after secondary contact.
    Journal of Mathematical Biology 70(7): 1523-1580. (doi)

  • Matuszewski S., Hermisson J., and Kopp M. (2015)
    Catch me if you can: Adaptation from standing genetic variation to a moving phenotypic optimum.
    Genetics 200(4): 1255-1274. (doi)

  • Svardal H., Rueffler C., and Hermisson J. (2015)
    A general condition for adaptive genetic polymorphism in temporally and spatially heterogeneous environments.
    Theoretical Population Biology 99: 76-97. (doi)

  • Tobler R., Franssen S.U., Kofler R., Orozco-terWengel P., Nolte V., Hermisson J., and Schlötterer C. (2014)
    Massive habitat-specific genomic response in D. melanogaster populations during experimental evolution in hot and cold environments.
    Molecular biology and evolution 31: 364-375. (doi).
  • Huber C.D., Nordborg M., Hermisson J., and Hellmann I. (2014)
    Keeping It Local: Evidence for Positive Selection in Swedish Arabidopsis thaliana.
    Molecular Biology and Evolution 31(11): 3026-3039. (doi).

  • Matuszewski S., Hermisson J., and Kopp, M.(2014)
    Fisher’s geometric model with a moving optimum.
    Evolution 68: 2571-2588. (doi).

  • Uecker H., Otto S.P., and Hermisson J. (2014)
    Evolutionary rescue in structured populations.
    The American Naturalist 183: E17-E35. (doi).

  • Rettelbach, A., Kopp M., Dieckmann, U., and Hermisson J. (2013)
    Three Modes of Adaptive Speciation in Spatially Structured Populations.
    The American Naturalist 182: E215-E234 . (doi).

  • Servedio M.R., Hermisson J. and Van Doorn G.S. (2013)
    Hybridization may rarely promote speciation
    Journal of Evolutionary Biology 26: 282-285. (doi).

  • Bank C., Bürger R. and Hermisson J. (2012)
    The Limits to Parapatric Speciation: Dobzhansky-Muller Incompatibilities in a Continent-Island Model
    Genetics 191: 845-863 (doi).

  • Rueffler C., Hermisson J., and Wagner, G.P. (2012).
    Evolution of Functional Specialization and Division of Labor.
    Proceedings of the National Academy of the Sciences U.S.A. 109: E326-E335 (open access)

  • Bank C., Hermisson J. and Kirkpatrick, M. (2012)
    Can reinforcement complete speciation?
    Evolution 66: 229-239 (doi).
  • Svardal H., Rueffler C., and Hermisson J. (2011).
    Comparing environmental and genetic variance as adaptive response to fluctuating selection.
    Evolution 65: 2492-2513. (pdf, if you are unable to access this reprint from the journal web site, request a pdf from the authors)

  • Ewing G., Hermisson C., Pfaffelhuber P., and Rudolf J. (2011).
    Selective sweeps for recessive alleles and for other modes of dominance.
    Journal of Mathematical Biology 63: 399-431. (doi)

  • Rettelbach, A., Hermisson, J. Dieckmann, U. and Kopp M. (2011).
    Effects of genetic architecture on the evolution of assortative mating under frequency-dependent disruptive selection.
    Theoretical Population Biology 79: 82-96. (doi)

  • Mueller J.C., Hermisson J., Olano-Marin J., Hansson B. and Kempenaers B. (2011).
    Linking genetic mechanisms of heterozygosity-fitness correlations to footprints of selection at single loci.
    Evolutionary Ecology 25: 1-11. (doi)

  • Uecker H. and Hermisson J. (2011).
    On the fixation process of a beneficial mutation in a variable environment.
    Genetics 188: 915-930. (doi)
  • Ewing G. and Hermisson J. (2010).
    MSMS: A coalescent simulation program including recombination, demographic structure, and selection at a single locus.
    Bioinformatics 26: 2064-2065.

  • Kopp M. and Hermisson J. (2009).
    The genetic basis of phenotypic adaptation II: The distribution of adaptive substitutions in the moving optimum model.
    Genetics 183: 1453-1476. (pdf)

  • Goering L.M., Hunt P.K., Heighington C., Busick C., Pennings P., Hermisson J., Kumar S. and Gibson G. (2009)
    Association of orthodenticle with natural variation for early embryonic patterning in Drosophila melanogaster.
    J. Exp. Zool. (Mol. Dev. Evol.) 312B: 841-854. (pdf)

  • Hermisson J. (2009)
    Who believes in whole-genome scans for selection.
    Heredity 103: 283-284. (pdf)

  • Kopp M. and Hermisson J. (2009).
    The genetic basis of phenotypic adaptation I: Fixation of beneficial mutations in the moving optimum model.
    Genetics 182: 233-249. (pdf)

  • Alvarez-Castro J.-M., Kopp M. and Hermisson J. (2009).
    Effects of epistasis and the evolution of genetic architecture: exact results for a 2-locus model.
    Theoretical Population Biology 75: 109-122. (pdf)

  • Hermisson J. and McGregor, A.P. (2008).
    Pleiotropic scaling and QTL data.
    Nature 456: E3-E4.

  • Hermisson J. and Pfaffelhuber P. (2008).
    The pattern of genetic hitchhiking under recurrent mutation.
    Electronic Journal of Probability 13: 2069-2106. (pdf)

  • Kopp M. and Hermisson J. (2008).
    Competitive speciation and costs of choosiness.
    Journal of Evolutionary Biology 21: 1005-1023. (pdf)

  • Pennings, P.S., Kopp M., Meszena G., Dieckmann U. and Hermisson J. (2008).
    An analytically tractable model for competitive speciation.
    American Naturalist 171: E44-E71. (pdf)

  • Kopp M. and Hermisson J. (2007).
    Adaptation of a quantitative trait to a moving optimum.
    Genetics 176: 715-719.

  • Pennings P.S. and Hermisson J. (2006).
    Soft sweeps II - Molecular population genetics of adaptation from recurrent mutation or migration
    Molecular Biology and Evolution 23: 1076-1084. (pdf)

  • Kopp M. and Hermisson J. (2006).
    Evolution of genetic architecture under frequency-dependent disruptive selection
    Evolution 60: 1537-1550. (pdf)

  • Hansen T.F., Alvarez-Castro J.-M., Carter A.J.R., Hermisson J. and Wagner G.P. (2006).
    Evolution of genetic architecture under directional selection
    Evolution 60: 1523-1536. (pdf)

  • Pennings P.S. and Hermisson J. (2006).
    Soft sweeps III - The signature of positive selection from recurrent mutation
    PLoS Genetics 2: e186 (pdf)

  • Hermisson J. and Pennings P.S. (2005).
    Soft sweeps - molecular population genetics of adaptation from standing genetic variation.
    Genetics 169: 2335-2352. (pdf)

  • Hermisson J. and Wagner G.P. (2005).
    Evolution of phenotypic robustness.
    Book chapter appeared in: Robust Design: A Repertoire from Biology, Ecology, and Engineering,
    E. Jen (ed.), Oxford University Press, Oxford, pp 47-70. (pdf)

  • Stoletzki J., Welch J., Hermisson J. and Eyre-Walker A. (2005).
    A dissection of volatility in yeast.
    Molecular Biology and Evolution 22, 2022-2026. (pdf)

  • Carter A.J.R., Hermisson J. and Hansen T.F. (2005).
    The role of epistatic gene interactions in the response to selection and the evolution of evolvability.
    Theoretical Population Biology 68, 179-196. (pdf)

  • Shpak M., Stadler P.F., Wagner G.P. and Hermisson J. (2004).
    Aggregation of variables and system decomposition: application to fitness landscape analysis.
    Theory in Biosciences 123(1):33-68.

  • Hermisson J. and Wagner G.P. (2004).
    The Population Genetic Theory of Hidden Variation and Genetic Robustness.
    Genetics 168:2271-2284. (pdf)
    Featured in Nature Reviews Genetics Vol. 6 Feb 2005 (.pdf)

  • Bagheri-Chaichian H., Hermisson J., Vaisnys J.R. and Wagner G. P. (2003).
    Effects of epistasis on phenotypic robustness in metabolic pathways.
    Mathematical Biosciences 184:27-51.

  • Hermisson J., Hansen T.F. and Wagner G.P. (2003).
    Epistasis in polygenic traits and the evolution of genetic architecture under stabilizing selection.
    American Naturalist 161:708-734. (pdf)

  • de Visser J.A.G.M., Hermisson J. et. al. (2003).
    Perspective: evolution and detection of genetic robustness.
    Evolution 57:1959-1972. (pdf)

  • Hermisson J., Redner O., Wagner H. and Baake E. (2002).
    Mutation-selection balance: ancestry, load, and maximum principle.
    Theoretical Population Biology 62: 9-46. (pdf)

  • Hermisson J., Wagner H. and Baake M. (2001).
    Four-state quantum chain as a model for sequence evolution.
    Journal of Statistical Physics 102: 315-343. (pdf)

Quantum Physics

  • Hermisson J. (2000). Aperiodic and correlated disorder in XY-chains: exact results, J. Phys. A 33: 57-79.
  • Hermisson J. (2000). Renormalization of two-dimensional Ising systems with irrelevant, marginal, and relevant (dis)order. Mat. Sci. Eng. A 294-296: 642-645.

  • Hermisson J. and Grimm U. (1998). Surface properties of aperiodic Ising quantum chains. Phys. Rev. B57: 673-676.
  • Richard C., Höffe M., Hermisson J. and Baake M. (1998). Random tilings: concepts and examples. J. Phys. A 31: 6385-6408.
  • Hermisson J. (1998). The aperiodic Ising quantum chain. pp. 99-102 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
  • Baake M., Hermisson J., Lück R. and Scheffer M. (1998). Colourings of quasicrystals. pp. 120-123 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
  • Baake M., Hermisson J., Höffe M. and Richard C. (1998). Random tilings and dimer models. pp. 128-131 in: Proc. 6th Intern. Conf. on Quasicrystals Takeuchi S. and Fujiwara T. (eds.), World Scientific, Singapore 1998.
  • Baake M., Hermisson J. and Pleasants P. (1997). The torus parametrization of quasiperiodic LI-classes. J. Phys. A 30: 3029-3056.
  • Hermisson J. (1997). The symmetry structure of the Ammann-Beenker tiling class. pp. 977-981 in: Proc. XXI Int. Colloq. on Group Theor. Meth. in Physics Doebner H.-D., Scherer W., and Schulte C. (eds.), World Scientific, Singapore 1997.
  • Hermisson J., Richard C. and Baake M. (1997). A guide to the symmetry structure of quasiperiodic tiling classes. J. Phys. I (France) 7: 1003-1018.
  • Hermisson J., Grimm U., and Baake M. (1997). Aperiodic Ising quantum chains. J. Phys. A 30: 7315-7335.
  • Kopietz P., Hermisson J., and Schönhammer K. (1995). Bosonization of interacting fermions in arbitrary dimension beyond the Gaussian approximation. Phys. Rev. B 52: 10877-10898.