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Publications
Articles in peer-review journals

Submitted/under revision

68. Vidiella B, Valverde S, Fontich E, Sardanyés J, Transients in simple trophic chains with facilitation: the impact of habitat destruction. Theoretical Ecology (submitted)

67. Sardanyés J, Raich C, Alarcón T. Noise-induced stabilization of saddle-node ghosts. Physical Review E (submitted)

66. Solé R, Sardanyés J, Elena SF, Phase transitions in Virology. Virus Evolution (submitted)

65.Zaldo Q, Serra I, Alsedà Ll, Sardanyés J, Maneja R, Reviewing the reliability of Land Use and Land Cover Data in studies relating human health to the environment. Land Use Policy (submitted)

64. Vidiella B, Sardanyés  J, Solé R, Synthetic soil crusts against green-desert transitions: a spatial model. Royal Society Open Science​ (submitted)
 

Published

63. Penella C, Alarcón T, Sardanyés J, Spatio-temporal dynamics of cancer phenotypic quasispecies under targeted therapy. Proceedings of the 9th International Congress on Industrial and Applied Mathematics (ICIAM) (2020) Accepted​

62. Nurtay A, Hennessy MG, Alsedà Ll, Elena SF, Sardanyés J, Host-virus evolutionary dynamics with specialist and generalist infection strategies: bifurcations, bistability and chaos. Chaos (2020) Accepted​

61. Perona J, Fontich E, Sardanyés  J, Dynamical effects of loss of cooperation in discrete-time hypercycles​Physica D: Nonlinear Phenomena 406: 132425 (2020)

60. Conde-Pueyo N, Vidiella B, Sardanyés J, Berdugo M, Maestre FT, de Lorenzo V, Solé R, Synthetic biology for terraformation: lessons from Mars, Earth, and the microbiome​. Life 10(2): 14 (2020) 

59. Alsedà Ll, Vidiella B, Solé RLázaro JT, Sardanyés J, Dynamics in a time-discrete food-chain model with strong pressure on preysCommunications in Nonlinear Science and Numerical Simulation 84, 105187 (2020)

58. Sardanyés J, Piñero J, Solé R, Habitat loss-induced tipping points in metapopulations with facilitation​. Population Ecology 1-14 (2019)

57. Sardanyés JViruses: Agents of evolutionary inventionThe Quarterly Review of Biology 94(1): 90-91 (2019)

56. Nurtay A, Hennessy MG, Sardanyés J, Alsedà Ll, Elena SF, Theoretical conditions for the coexistence of viral strains with differences in phenotypic traits: a bifurcation analysis​Royal Society Open Science 6: 181179 (2019)
55. Fornés J, Lázaro JT, Alarcón T, Elena SF, Sardanyés J, Viral replication modes in single-peak fitness landscapes: A dynamical systems analysisJournal of Theoretical Biology 460: 170-183 (2019)
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54. Gimeno J, Jorba À, Sardanyés J, On the effect of time lags on a saddle-node remnant in hyperbolic replicatorsJournal of Physics A: Mathematical and Theoretical 51(38): 385601 (2018) 

53. Corral À, Sardanyés J, Alsedà Ll, Finite-time scaling in local bifurcations. Scientific Reports 8:11783​ (2018)
 
52. Solé R, Montañez R, Duran-Nebreda S, Rodríguez-Amor D, Vidiella B, Sardanyés J, Population dynamics of synthetic Terraformation motifs​. ​​Royal Society Open Science 5: 180121 (2018) 

51. Vidiella B, Sardanyés J, Solé R, Exploiting delayed transitions to sustain semiarid ecosystems after catastrophic shifts​​Journal of the Royal Society Interface 15: 20180083 (2018)

50. Sardanyés J, Arderiu A, Elena SF, Alarcón T, Noise-induced bistability in the quasineutral coexistence of viral RNA under different replication modes. ​Journal of the Royal Society Interface 15: 20180129 (2018)​​

49. Puig J, Farré G,  Guillamon A, Fontich E, Sardanyés J, Bifurcation gaps in asymmetric and high-dimensional hypercyclesInternational Journal of Bifurcation and Chaos 28(1): 1-17 (2018) 
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48. Duarte J, Januário C, Martins N, Correia-Ramos C, Rodrigues C, Sardanyés J, Optimal homotopy analysis of a chaotic HIV-1 model incorporating AIDS-related cancer cells​Numerical Algorithms 77(1): 261-288 (2018)
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47. Sardanyés J, Alarcón T, Noise-induced bistability in the fate of cancer phenotypic quasispcies: a bit-strings approach​Scientific Reports 8:1027 (2018)

46. Sardanyés J, Simó C, Martínez R, Trans-heteroclinic bifurcation: A novel type of catastrophic shift​Royal Society Open Science 5: 171304 (2018) 

45. Farré G, Sardanyés J, Guillamon A, Fontich E, Coexistence stability in a four-member hypercycle with error tail through center manifold analysisNonlinear Dynamics 90(3): 1873-1883 (2017) 

44. Sardanyés J, Martínez R, Simó C, Solé R, Abrupt transitions to tumor extinction: A phenotypic quasispecies model​. Journal of Mathematical Biology 74(7): 1589-1609 (2017)​

43. Sardanyés J, Lázaro JT, Guillamon A, Fontich E, Full analysis of small hypercycles with short-circuits in prebiotic evolution​.​ Physica D: Nonlinear Phenomena 347: 90-108 (2017)

42. Castillo V, Lázaro JT, Sardanyés J, Dynamics and bifurcations in a simple quasispecies model of tumorigenesis. Computational and Applied Mathematics 36: 415-431 (2017)

41. Willemsen A, Zwart MP, Higueras P, Sardanyés J, Elena SF, Predicting the stability of homologous gene duplications in a plant RNA virus. Genome Biology and Evolution 8(9): 3065-3082 (2016) 

40. Guillamon A, Fontich E, Sardanyés J, Bifurcations analysis of oscillating hypercycles. Journal of Theoretical Biology 387: 23-30 (2015)

39. Sardanyés J, Rodrigues C, Januário C, Martins N, Duarte J, How complex, probable, and predictable is genetically-driven Red Queen chaos? Acta Biotheoretica 63(4): 341-361 (2015)

38. Sardanyés J, Bonforti A, Conde N, Solé R, Macia J, Computational implementation of a tunable multicellular memory circuit for engineered eukaryotic consortia. Frontiers in Physiology 6: 281 (2015)

37. Sardanyés J, Rodrigues C, Januário C, Martins N, Duarte J, Activation of effector immune cells promotes tumor stochastic extinction: A homotopy analysis approach. Applied Mathematics and Computation 252: 484-495 (2015)

36.  Notton T, Sardanyés J, Weinberger AD, Weinberger LS, The case for transmissible antivirals to control population-wide infectious disease. Trends in Biotechnology 32(8): 400-405 (2014)

35. Sardanyés J, Simó C, Martínez R, Solé RV, Elena SF, Variability in mutational fitness effects prevents full lethal transitions in large quasispecies populations​. Scientific Reports 4: 4625 (2014)

34. Solé RV, Valverde S, Rodriguez-Caso C, Sardanyés J, Can a minimal replicating construct be identified as the embodiment of cancer? Bioessays 36: 503-512 (2014) This paper was featured in Bioessays.

33. Sardanyés J, Viral RNA replication modes: evolutionary and dynamical implications. Trends in Mathematics 2: 115-119 (2014)

32. Duarte J, Januário C, Rodrigues C, Sardanyés J, Topological complexity and predictability in the dynamics of a tumor growth model with Shilnikov’s chaos. International Journal of Bifurcations and Chaos. 23: 1350124 (2013)

31. Zwart MP, Piljman GP, Sardanyés J, Duarte J, Januário C, Elena SF, Complex dynamics of defective interfering baculoviruses during serial passage in insect cells​. Journal of Biological Physics 39(2): 327-342 (2013)

30. Sardanyés J, Duarte J, Januário C, Martins N, Controlling delayed transitions with applications to prevent single species extinctions. Advances in Differential Equations and Control Processes 10(1): 29-41 (2012)

29. Duarte J, Januário C, Martins N, Sardanyés J, On chaos, transient chaos and ghosts in single population models with Allee effects. Nonlinear Analysis Series B 13(4): 1647-1661 (2012)
 
28. Sardanyés J, Martínez F, Daròs J-A, Elena SF, Dynamics of alternative modes of RNA replication for positive-sense RNA viruses. Journal Royal Society Interface 9: 768-776 (2012)

27. Duarte J, Januário C, Martins N, Sardanyés J, Scaling law in saddle-node bifurcations for one dimensional maps: a complex variable approach​. Nonlinear Dynamics 67: 541-547 (2012)

26. Sardanyés J., Duarte J, Januário C, Martins N, Topological entropy of catalytic sets: Hypercycles revisited. Communications in Nonlinear Science and Numerical Simulations 17(2): 795-803 (2012)

25. Sardanyés J, Elena SF, Quasispecies spatial models for RNA viruses with different replication modes and infection strategies. Plos One 6(9): e24884 (2011)

24. Lafforgue G, Martínez F, Sardanyés J, de la Iglesia F, Shi-Shun L, Qi-Wen N, Solé RV, Chua N-H, Daròs J-A, Elena SF,  Tempo and mode of plant RNA virus escape from RNA interference-mediated resistance. Journal of Virology 85(19): 9686-9695 (2011) 
 
23. Martínez F, Sardanyés J, Elena SF, Daròs J-A, Dynamics of a plant RNA virus accumulation: stamping machine versus geometric replication. Genetics 188: 637-646 (2011)

22. Sardanyés J, Low dimensional homeochaos in coevolving host-parasitoid dimorphic populations: Extinction thresholds under local noise. Communications in Nonlinear Science and Numerical Simulations 16: 3896-3903 (2011)

21. Lafforgue G, Sardanyés J, Elena SF, Differences in accumulation and virulence determine the outcome of outcompetition during Tobacco etch virus coinfection. Plos One 6: e17917 (2011).

20. Duarte J, Januário C, Martins N, Sardanyés J, Quantifying chaos for ecological stoichiometry, Chaos 20: 033105 (2010) 

19. Elena SF, Solé RV, Sardanyés J, Simple genomes, complex interactions: Epistasis in RNA virus. Chaos  20: 026106 (2010)

18. Sardanyés J, Elena SF, Error threshold in RNA quasispecies models with complementation. Journal of Theoretical Biology 265: 278-286 (2010)

17. Sardanyés J, Fontich E, On the metapopulation dynamics of autocatalysis: extinction transients related to ghosts. International Journal of Bifurcation and Chaos 20(4): 1-8 (2010)

16. Duarte J, Januário C, Martins N, Sardanyés J, Chaos and crises in a model for cooperative hunting: a symbolic dynamics approach. Chaos 19: 043102 (2009)

15. Sardanyés J, Solé RV, Elena SF, Replication mode and landscape topology differentially affect RNA virus mutational load and robustness. Journal of Virology 83(23): 12579-12589 (2009)

14. Fontich E, Sardanyés J, Dynamical role of the degree of intraspecific cooperation: a simple model for prebiotic replicators and ecosystems. Physica A 388(9): 1867-1878 (2009)

13. Sardanyés J, Ghosts in high dimensional nonlinear dynamical systems: The example of the Hypercycle. Chaos, Solitons and Fractals 39(1): 92-100 (2009)

12. Fontich E, Sardanyés J, General scaling law in the saddle-node bifurcation: a complex phase space study​. Journal of Physics A: Mathematical and Theoretical 41(15102): 1-9  (2008)

11. Sardanyés J, Elena SF, Solé RV, Simple quasispecies models for the survival-of-the-flattest effect: the role of space. Journal of Theoretical Biology 250(3): 560-568 (2008)

10. Sardanyés J, Error threshold ghosts in a simple hypercycle with error prone self-replication. Chaos, Solitons and Fractals 35: 313-319 (2008)

9. Sardanyés J, Solé RV, Matching allele dynamics and coevolution in a minimal predator-prey replicator model. Physics Letters A 372(4): 341-350 (2008)

8. Sardanyés J, Solé RV, Delayed transitions in nonlinear replicator networks: About ghosts and hypercycles. Chaos, Solitons and Fractals 31(2): 305-315 (2007)

7. Sardanyés J, Solé RV, Space-time dynamics in simple asymmetric hypercycles under weak parasitic coupling. Physica D 231(2): 116-129 (2007)

6. Sardanyés J, Solé RV, Red Queen strange attractors in host-parasite replicator gene-for-gene coevolution. Chaos, Solitons and Fractals 32(5): 1666-1678 (2007)

5. Sardanyés J, Solé RV, Chaotic stability in spatially-resolved host-parasite replicators: The Red Queen on a lattice. International Journal of Bifurcation and Chaos 17(2): 1-18 (2007)

4. Sardanyés J, Solé RV, The role of cooperation and parasites in nonlinear replicator delayed extinctions. Chaos, Solitons and Fractals 31(5): 1279-1296 (2007)

3. Sardanyés J, Solé RV, Bifurcations and phase transitions in spatially-extended two-member hypercycles. Journal of Theoretical Biology 243(4): 468-482 (2006)

2. Sardanyés J, Solé RV, Ghosts in the origins of life?​ International Journal of Bifurcation and Chaos 16(9): 2761-2765 (2006)

1. Solé RV, Sardanyés J, Diez J, Mas A, Information catastrophe in RNA viruses through replication thresholds. Journal of Theoretical Biology 240(3): 353-359 (2006)


Book chapters

5. Vidiella B, Lázaro JT, Alsedà Ll, Sardanyés J, On dynamics and invariant sets in predator-prey maps​. Ed. IntechOpen (2019)

4. Solé RV, Sardanyés J,  Red Queen Coevolution on Fitness Landscapes, in Recent Advances in the Theory and Applications of Fitness Landscapes, (eds. Zelinka, I., Adamatzky, A., Chen, G.). Springer (2013)

3. Duarte J, Januário C, Martins N, Sardanyés J, On symbolic dynamics and control in chaotic systems. Chapt. 1, p. 1-41 in Advanced Topics in Nonlinear Chaotic Systems: A collection of papers, (ed. E. Zeraoulia). Science Publishers (2012)

2. Sardanyés J, The hypercycle: from molecular to ecosystems dynamics. Chapt. 6, in Landscape Ecology Research Trends, (Eds. A. Dupont and H. Jacobs). Nova Publishers (2008)

1. Solé RV, Macía J, Fellermann H, Munteanu A, Sardanyés J, Valverde S, Models of Protocell Replication. In Protocells: bridging living and non-living matter, (Eds. S. Rasmussen et al.).  Massachusetts Institute of Technology, MIT Press (2008)​​

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