- Open Access
Rare events of host switching for diseases using a susceptible-infected-recovered model with mutations
Phys. Rev. E 113, 014302 – Published 6 January, 2026
DOI: https://doi.org/10.1103/8g2r-w6x6
Abstract
We numerically study disease dynamics that lead to the disease switching from one host species to another, resulting in diseases gaining the ability to infect, e.g., humans. Unlike previous studies that focused on branching processes starting with the first infected humans, we begin by considering a disease pathogen that initially cannot infect humans. We model the entire process, starting from an infection in the animal population, including mutations that eventually enable the disease to cause an epidemic outbreak in the human population. We use a susceptible-infected-recovered model on a network consisting of 132 dog and 1320 human nodes, with a single parameter representing the gene of the pathogen. We use numerical large-deviation techniques, specifically the Wang-Landau algorithm, to calculate the potentially very small probability of the host-switching event. With this approach we are able to resolve probabilities as small as . Additionally, the Wang-Landau algorithm allows us to obtain the complete probability density function of the cumulative fraction of infected humans, which is an indicator for the severity of the disease in the human population. We also calculate correlations of with selected quantities that characterize the outbreak. Due to the application of the rare-event algorithm, this is possible for the entire range of values.
Physics Subject Headings (PhySH)
Article Text
References (98)
- H. W. Hethcote, SIAM Rev. 42, 599 (2000).
- M. Salathé and J. H. Jones, PLoS Comput. Biol. 6, e1000736 (2010).
- A. Apolloni, C. Poletto, J. J. Ramasco, P. Jensen, and V. Colizza, Theor. Biol. Med. Model. 11, 3 (2014).
- R. Pastor-Satorras, C. Castellano, P. Van Mieghem, and A. Vespignani, Rev. Mod. Phys. 87, 925 (2015).
- W. Wang, M. Tang, H. E. Stanley, and L. A. Braunstein, Rep. Prog. Phys. 80, 036603 (2017).
- C. E. Walters, M. M. Meslé, and I. M. Hall, Epidemics 25, 1 (2018).
- L. Tang, Y. Zhou, L. Wang, S. Purkayastha, L. Zhang, J. He, F. Wang, and P. X.-K. Song, Int. Stat. Rev. 88, 462 (2020).
- A. Handel, N. L. La Gruta, and P. G. Thomas, Nat. Rev. Immunol. 20, 186 (2020).
- Y. Chen, F. Liu, Q. Yu, and T. Li, Appl. Math. Modell. 97, 281 (2021).
- A. Mendez-Brito, C. El Bcheraoui, and F. Pozo-Martin, J. Infect. 83, 281 (2021).
- Z. Wang, C. T. Bauch, S. Bhattacharyya, A. d'Onofrio, P. Manfredi, M. Perc, N. Perra, M. Salathé, and D. Zhao, Phys. Rep. 664, 1 (2016).
- S. Cleaveland, M. K. Laurenson, and L. H. Taylor, Philos. Trans. R. Soc. London B 356, 991 (2001).
- L. H. Taylor, S. M. Latham, and M. E. J. Woolhouse, Philos. Trans. R. Soc. London B 356, 983 (2001).
- J. Slingenbergh, M. Gilbert, K. de Balogh, and W. Wint, Rev. Sci. Tech. OIE 23, 467 (2004).
- C. R. Parrish, E. C. Holmes, D. M. Morens, E.-C. Park, D. S. Burke, C. H. Calisher, C. A. Laughlin, L. J. Saif, and P. Daszak, Microbiol. Mol. Biol. Rev. 72, 457 (2008).
- A. D. Luis, D. T. S. Hayman, T. J. O'Shea, P. M. Cryan, A. T. Gilbert, J. R. C. Pulliam, J. N. Mills, M. E. Timonin, C. K. R. Willis, A. A. Cunningham, A. R. Fooks, C. E. Rupprecht, J. L. N. Wood, and C. T. Webb, Proc. R. Soc. B: Biol. Sci. 280, 20122753 (2013).
- J.-F. Guégan, A. Ayouba, J. Cappelle, and B. de Thoisy, Environ. Res. Lett. 15, 083007 (2020).
- E. C. Holmes, Annu. Rev. Virol. 9, 173 (2022).
- J. Charostad, M. Rezaei Zadeh Rukerd, S. Mahmoudvand, D. Bashash, S. M. A. Hashemi, M. Nakhaie, and K. Zandi, Travel Med. Infect. Dis. 55, 102638 (2023).
- M. Uhart, R. E. T. Vanstreels, M. I. Nelson, V. Olivera, J. Campagna, V. Zavattieri, P. Lemey, C. Campagna, V. Falabella, and A. Rimondi, Nat. Commun. 15, 9516 (2024).
- R. J. Webby and T. M. Uyeki, J. Infect. Dis. 230, 533 (2024).
- R. J. Webby and T. M. Uyeki, J. Infect. Dis. 231, e598 (2025).
- G. Neumann and Y. Kawaoka, Nat. Rev. Microbiol. 22, 525 (2024).
- Z. L. Grange, et al., Proc. Natl. Acad. Sci. USA 118, e2002324118 (2021).
- R. Antia, R. R. Regoes, J. C. Koella, and C. T. Bergstrom, Nature (London) 426, 658 (2003).
- S. Singh, D. J. Schneider, and C. R. Myers, Phys. Rev. E 89, 032702 (2014).
- A. Tripathi, H. C. Dhakal, K. Adhikari, R. C. Timsina, and L. M. Wahl, J. Biol. Dyn. 15, 327 (2021).
- S. J. Schreiber, R. Ke, C. Loverdo, M. Park, P. Ahsan, and J. O. Lloyd-Smith, Virus Evol. 7, veaa105 (2021).
- W. H. Ng, C. R. Myers, S. McArt, and S. P. Ellner, Am. Nat. 201, 880 (2023).
- R. O. Mummah, N. A. Hoff, A. W. Rimoin, and J. O. Lloyd-Smith, One Health Outlook 2, 17 (2020).
- J. O. Lloyd-Smith, D. George, K. M. Pepin, V. E. Pitzer, J. R. C. Pulliam, A. P. Dobson, P. J. Hudson, and B. T. Grenfell, Science 326, 1362 (2009).
- S. Dorjee, Z. Poljak, C. W. Revie, J. Bridgland, B. McNab, E. Leger, and J. Sanchez, Zoonoses Public Health 60, 383 (2013).
- L. K. Ursell, J. L. Metcalf, L. W. Parfrey, and R. Knight, Nutr. Rev. 70, S38 (2012).
- A. L. Bryd, Y. Belkaid, and J. A. Segre, Nat. Rev. Microbiol. 16, 143 (2018).
- J. Kallmeyer, R. Pockalny, R. R. Adhikari, D. C. Smith, and S. D'Hondt, Proc. Natl. Acad. Sci. USA 109, 16213 (2012).
- H. Flemming and S. Wuertz, Nat. Rev. Microbiol. 17, 247 (2019).
- R. K. Plowright, C. R. Parrish, H. McCallum, P. J. Hudson, A. I. Ko, A. L. Graham, and J. O. Lloyd-Smith, Nat. Rev. Microbiol. 15, 502 (2017).
- B. Longdon, M. A. Brockhurst, C. A. Russell, J. J. Welch, and F. M. Jiggins, PLoS Pathog. 10, e1004395 (2014).
- M. Anishchenko, R. A. Bowen, S. Paessler, L. Austgen, I. P. Greene, and S. C. Weaver, Proc. Natl. Acad. Sci. USA 103, 4994 (2006).
- M. Linster, S. van Boheemen, M. de Graaf, E. Schrauwen, P. Lexmond, B. Mänz, T. Bestebroer, J. Baumann, D. van Riel, G. Rimmelzwaan, A. Osterhaus, M. Matrosovich, R. Fouchier, and S. Herfst, Cell 157, 329 (2014).
- E. Berber, D. Sumbria, and N. Çanakoğlu, J. Infect. Public Health 14, 1051 (2021).
- P. Daszak, A. A. Cunningham, and A. D. Hyatt, Science 287, 443 (2000).
- P. Daszak, G. M. Tabor, A. M. Kilpatrick, J. Epstein, and R. Plowright, Ann. N.Y. Acad. Sci. 1026, 1 (2004).
- S. Rüdiger, A. Plietzsch, F. Sagués, I. M. Sokolov, and J. Kurths, Sci. Rep. 10, 5919 (2020).
- W. O. Kermack and A. G. McKendrick, Proc. R. Soc. London A 155, 700 (1927).
- I. Z. Kiss, J. C. Miller, and P. L. Simon, Mathematics of Epidemics on Networks (Springer, Cham, 2017).
- F. Brauer, C. Castillo-Chavez, and Z. Feng, Mathematical Models in Epidemiology (Springer, New York, 2019).
- A. Dembo and O. Zeitouni, Large Deviations Techniques and Applications (Springer, Berlin, 2010).
- C. Giardina, J. Kurchan, V. Lecomte, and J. Tailleur, J. Stat. Phys. 145, 787 (2011).
- F. den Hollander, Large Deviations (American Mathematical Society, Providence, RI, 2000).
- H. Touchette, Phys. Rep. 478, 1 (2009).
- H. Touchette, in Modern Computational Science 11: Lecture Notes from the 3rd International Oldenburg Summer School, edited by R. Leidl and A. K. Hartmann (BIS-Verlag, Oldenburg, 2011), arXiv:1106.4146.
- Y. Feld and A. K. Hartmann, Phys. Rev. E 105, 034313 (2022).
- E. I. Sevensson and R. Calsbeek, The Adaptive Landscape in Evolutionary Biology (Oxford University Press, Oxford, 2012).
- J. A. G. M. de Visser and J. Krug, Nat. Rev. Gen. 15, 480 (2014).
- S. Manrubia, J. A. Cuesta, J. Aguirre, S. E. Ahnert, L. Altenberg, A. V. Cano, P. Catalán, R. Diaz-Uriarte, S. F. Elena, J. A. García-Martín, P. Hogeweg, B. S. Khatri, J. Krug, A. A. Louis, N. S. Martin, J. L. Payne, M. J. Tarnowski, and M. Weiß, Phys. Life Rev. 38, 55 (2021).
- C. Bank, Annu. Rev. Ecol. Evol. Syst. 53, 457 (2022).
- A. K. Hartmann and M. Weigt, Phase Transitions in Combinatorial Optimization Problems: Basics, Algorithms and Statistical Mechanics (Wiley-VCH, Weinheim, 2005).
- M. Newman, in Networks: An Introduction (Oxford University Press, Oxford, 2010), pp. 552–565.
- Y. Feld, Code for simulations in rust, https://github.com/Pardoxa/sir_animal (2023); Gnuplot plot and source data files https://www.doi.org/10.57782/LUTXFX.
- https://cland.lsce.ipsl.fr.
- G. E. Crooks and D. Chandler, Phys. Rev. E 64, 026109 (2001).
- C. Dellago, P. G. Bolhuis, F. S. Csajka, and D. Chandler, J. Chem. Phys. 108, 1964 (1998).
- T. Dewenter and A. K. Hartmann, New J. Phys. 17, 015005 (2015).
- Y. Feld and A. K. Hartmann, Chaos 29, 113103 (2019).
- H. C. Fogedby and W. Ren, Phys. Rev. E 80, 041116 (2009).
- A. K. Hartmann, B. Meerson, and P. Sasorov, Phys. Rev. Res. 1, 032043(R) (2019).
- A. K. Hartmann, B. Meerson, and P. Sasorov, Phys. Rev. E 104, 054125 (2021).
- M. Körner, H. G. Katzgraber, and A. K. Hartmann, J. Stat. Mech. (2006) P04005.
- N. G. Fytas and P. E. Theodorakis, Eur. Phys. J. B 86, 30 (2013).
- J. K. Pommerenck and D. Roundy, Phys. Rev. E 102, 033306 (2020).
- D.-Z. Li, Y.-J. Zhao, and X.-B. Yang, J. Stat. Mech. (2022) 103203.
- A. Engel, R. Monasson, and A. K. Hartmann, J. Stat. Phys. 117, 387 (2004).
- A. K. Hartmann, Eur. Phys. J. B 84, 627 (2011).
- A. K. Hartmann, Eur. Phys. J. Spec. Top. 226, 567 (2017).
- H. Schawe and A. K. Hartmann, Eur. Phys. J. B 92, 73 (2019).
- P. Werner and A. K. Hartmann, Phys. Rev. E 104, 034407 (2021).
- P. Ojeda, M. E. Garcia, A. Londoño, and N.-Y. Chen, Biophys. J. 96, 1076 (2009).
- A. D. Swetnam and M. P. Allen, J. Comput. Chem. 32, 816 (2011).
- P. Singh, S. K. Sarkar, and P. Bandyopadhyay, J. Chem. Phys. 141, 015103 (2014).
- R. E. Belardinelli and V. D. Pereyra, Phys. Rev. E 75, 046701 (2007).
- F. Wang and D. P. Landau, Phys. Rev. Lett. 86, 2050 (2001).
- Q. Yan and J. J. de Pablo, Phys. Rev. Lett. 90, 035701 (2003).
- R. E. Belardinelli, S. Manzi, and V. D. Pereyra, Phys. Rev. E 78, 067701 (2008).
- R. E. Belardinelli and V. D. Pereyra, Phys. Rev. E 93, 053306 (2016).
- W. K. Hastings, Biometrika 57, 97 (1970).
- M. E. J. Newman and G. T. Barkema, Monte Carlo Methods in Statistical Physics (Clarendon Press, Oxford, 1999).
- D. P. Landau and K. Binder, A Guide to Monte Carlo Simulations in Statistical Physics, 4th ed. (Cambridge University Press, Cambridge, UK, 2014).
- J. Lee, Phys. Rev. Lett. 71, 211 (1993).
- G. E. P. Box and M. E. Muller, Ann. Math. Stat. 29, 610 (1958).
- A. K. Hartmann, Big Practical Guide to Computer Simulations (World Scientific, Singapore, 2015).
- H. Schawe, A. K. Hartmann, S. N. Majumdar, and G. Schehr, Europhys. Lett. 124, 40005 (2018).
- M. Laager, C. Mbilo, E. A. Madaye, A. Naminou, M. Léchenne, A. Tschopp, S. K. Naïssengar, T. Smieszek, J. Zinsstag, and N. Chitnis, PLOS Neglected Trop. Dis. 12, e0006680 (2018).
- M. Barthelemy, Spatial Networks (Springer, Cham, 2022).
- M. D. McKay, R. J. Beckman, and W. J. Conover, Technometrics 21, 239 (1979).
- B. Tang, J. Am. Stat. Assoc. 88, 1392 (1993).
- D. J. Watts and S. H. Strogatz, Nature (London) 393, 440 (1998).
- M. Léchenne, A. Oussiguere, K. Naissengar, R. Mindekem, L. Mosimann, G. Rives, J. Hattendorf, D. D. Moto, I. O. Alfaroukh, and J. Zinsstag, Vaccine 34, 571 (2016).