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Mechanical annealing in a soft granular layer under cyclic shear at varying frequencies
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  • Published: 14 February 2026

Mechanical annealing in a soft granular layer under cyclic shear at varying frequencies

  • Cecilio Tapia-Ignacio1,2,
  • Ruben Yvan Maarten Fossion2,3 &
  • Francisco López-González1,4 

Scientific Reports , Article number:  (2026) Cite this article

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We are providing an unedited version of this manuscript to give early access to its findings. Before final publication, the manuscript will undergo further editing. Please note there may be errors present which affect the content, and all legal disclaimers apply.

Subjects

  • Self-assembly
  • Statistical physics

Abstract

In the present work, we present a two-dimensional soft sphere granular system, with inclination, that models the transition from an amorphous solid to the crystalline phase by shear cycles induced by cyclic deformations of the boundary. To simulate an effective temperature, the system is subjected to vibration. Under these conditions, the system exhibits a controlled transition to hexagonal order, where the crystallization rate and extent depend critically on the shear frequency. The study focuses on the analysis of the effect of the shear frequency in phase change, and introduces a dimensionless shear frequency \(\tilde{f} = f_s \tau _r\), where \(\tau _r = \sqrt{m/k}\) is the intrinsic relaxation timescale of the particles, to identify the regimes in which mechanical annealing is effective. The soft granular particles used are polyacrylamide hydrogel spheres, with an estimated Young’s modulus of the order of \(10^4\) Pa, consistent with previous measurements for single-network polyacrylamide gels. Hexagonal order is measured in terms of the sixth-bond orientational order parameter \(\psi '_{6}\). By following the temporal evolution of this parameter, we find that low shear frequencies on the order of \(10^{-3}\) Hz (i.e., \(\tilde{f} \ll 1\)) favor the growth of hexagonal grains, while higher frequencies tend to reduce hexagonal order, leading to an unstable structure. Additionally, we characterize particle dynamics through autocorrelation measurements in the time series of \(\psi '_{6}\) using Fourier spectral analysis (FA). For all cases with non-zero shear frequency, the power spectra follow a power law, \(P(f) \propto 1/f^{\beta }\) with \(\beta > 1\), indicating non-stationarity. In contrast, for the static (0 Hz in shear frequency) case, the power spectrum is flat (\(\beta \approx 0.04\)), suggesting stationary white noise behavior in the time series.

Data availability

The datasets used and/or analyzed during the current study are available from the corresponding author (F.L.G.) upon reasonable request.

References

  1. López-González, F., Herrera-González, A. M. & Donado, F. Study of the transition from amorphous to crystalline phase in a granular system under shearing and vibration. Phys. A 590, 126756 (2022).

    Google Scholar 

  2. López-González, F., Pacheco-Vázquez, F. & Donado, F. Ordering of a granular layer of cubes under strain-induced shear and vibration. Phys. A 620, 128768 (2023).

    Google Scholar 

  3. Rietz, F., Radin, C., Swinney, H. L. & Schröter, M. Nucleation in sheared granular matter. Phys. Rev. Lett. 120, 701 (2018).

    Google Scholar 

  4. Panaitescu, A., Reddy, K. A. & Kudrolli, A. Nucleation and crystal growth in sheared granular sphere packings. Phys. Rev. Lett.108 (2012).

  5. Nakamura, N., Inayama, K., Okuno, T., Ogi, H. & Hirao, M. Accelerated crystallization of colloidal glass by mechanical oscillation. Sci. Rep. 7(1), 13699 (2017).

    Google Scholar 

  6. Nakamura, N., Nakashima, S. & Ogi, H. Mechanical oscillation accelerating nucleation and nuclei growth in hard-sphere colloidal glass. Sci. Rep. 9, 12836 (2019).

    Google Scholar 

  7. Morales-Barrera, D., Rodríguez-Gattorno, G. & Carvente, O. Reversible self-assembly (fcc-bct) crystallization of confined granular spheres via a shear dimensionality mechanism. Phys. Rev. Lett. 7, 121 (2018).

    Google Scholar 

  8. Daniels, K. E. & Behringer, R. P. Hysteresis and competition between disorder and crystallization in sheared and vibrated granular flow. Phys. Rev. Lett. 94, 168001 (2005).

    Google Scholar 

  9. Asencio, K., Acevedo, M., Zuriguel, I. & Maza, D. Experimental study of ordering of hard cubes by shearing. Phys. Rev. Lett. 119, 228002 (2017).

    Google Scholar 

  10. Smith, P. A., Petekidis, G., Egelhaaf, S. U. & Poon, W. C. K. Yielding and crystallization of colloidal gels under oscillatory shear. Phys. Rev. E 76, 4 (2007).

    Google Scholar 

  11. Qi-Cheng, S. Granular structure and the nonequilibrium thermodynamics. Wuli Xuebao 64(7), 076101 (2015).

    Google Scholar 

  12. Bloom, M., Russell, M., Kustau, A., Mandayam, S. & Sukumaran, B. An X-ray computed tomography technique for the measurement of packing density in granular particles. 2009 IEEE Instrumentation and Measurement Technology Conference, 978–983 (2009).

  13. Xing, Y. et al. X-ray tomography investigation of cyclically sheared granular materials. Phys. Rev. Lett. 126, 048002 (2021).

    Google Scholar 

  14. Radhakrishnan, R. & Fielding, S. M. Shear banding in large amplitude oscillatory shear (LAOStrain and LAOStress) of soft glassy materials. J. Rheol. 62, 559–576 (2018).

    Google Scholar 

  15. Møller, P. C. F., Rodts, S., Michels, M. A. J. & Bonn, D. Shear banding and yield stress in soft glassy materials. Phys. Rev. E 77, 041507 (2008).

    Google Scholar 

  16. Fielding, S. M. Shear banding in soft glassy materials. Rep. Prog. Phys. 77, 102601 (2014).

    Google Scholar 

  17. Yu, A. B., An, X. Z., Zou, R. P., Yang, R. Y. & Kendall, K. Self-assembly of particles for densest packing by mechanical vibration. Phys. Rev. Lett. 97, 265501 (2006).

    Google Scholar 

  18. Ciamarra, S. M. P., Coniglio, A., De Martino, D. & Nicodemi, M. Shear- and vibration-induced order-disorder transitions in granular media. Eur. Phys. J. E 24, 411–415 (2007).

    Google Scholar 

  19. Otsuki, M. & Hayakawa, H. Universal scaling for the jamming transition. Prog. Theor. Phys. 121, 647–652 (2009).

    Google Scholar 

  20. Dai, W., Reimann, J., Hanaor, D., Ferrero, C. & Gan, Y. Modes of wall induced granular crystallisation in vibrational packing. Granular Matter 21, 2 (2019).

    Google Scholar 

  21. Jin, W., O’Hern, C. S., Radin, C., Shattuck, M. D. & Swinney, H. L. Homogeneous crystallization in cyclically sheared frictionless grains. Phys. Rev. Lett. 125, 258003 (2020).

    Google Scholar 

  22. Athanassiadis, A. G. et al. Particle shape effects on the stress response of granular packings. Soft Matter 10, 48–59 (2014).

    Google Scholar 

  23. Frenkel, D., Mulder, B. M. & McTague, J. P. Phase diagram of hard ellipsoids of revolution. Mol. Cryst. Liq. Cryst. 123, 119–128 (1985).

    Google Scholar 

  24. Shakya, C., van der Gucht, J. & Dijksman, J. A. Viscoelastic material properties determine the contact mechanics of hydrogel spheres. Front. Phys. 12, 1334325 (2024).

    Google Scholar 

  25. Basu, A. et al. Rheology of soft colloids across the onset of rigidity: scaling behavior, thermal, and non-thermal responses. Soft Matter 10, 3027–3035 (2014).

    Google Scholar 

  26. Tapia, F., Hong, C.-W., Aussillous, P. & Guazzelli, É. Rheology of suspensions of non-Brownian soft spheres across the jamming and viscous-to-inertial transitions. Phys. Rev. Lett. 133, 088201 (2024).

    Google Scholar 

  27. Vialetto, J., Ramakrishna, S. N., Isa, L. & Laurati, M. Effect of particle stiffness and surface properties on the non-linear viscoelasticity of dense microgel suspensions. J. Colloid Interface Sci. 672, 814–823 (2024).

    Google Scholar 

  28. Yang, R. et al. Graph theoretical description of phase transitions in complex multiscale phases with supramolecular assemblies. Adv. Sci. 11, e2402464 (2024).

    Google Scholar 

  29. Taghizadeh, K., Luding, S., Basak, R. & Kondic, L. Understanding slow compression of frictional granular particles by network analysis. Soft Matter 20, 6440–6457 (2024).

    Google Scholar 

  30. Luding, S., Taghizadeh, K., Cheng, C. & Kondic, L. Understanding slow compression and decompression of frictionless soft granular matter by network analysis. Soft Matter 18, 1868–1884 (2022).

    Google Scholar 

  31. Fiocco, D., Foffi, G. & Sastry, S. Encoding of memory in sheared amorphous solids. Phys. Rev. Lett. 112, 025702 (2014).

    Google Scholar 

  32. Kawasaki, T. & Berthier, L. Macroscopic yielding in jammed solids is accompanied by a nonequilibrium first-order transition in particle trajectories. Phys. Rev. E 94, 022615 (2016).

    Google Scholar 

  33. Liu, C., Dutta, S., Chaudhuri, P. & Martens, K. Elastoplastic approach based on microscopic insights for the steady state and transient dynamics of sheared disordered solids. Phys. Rev. Lett. 126, 138005 (2021).

    Google Scholar 

  34. Seto, R., Singh, A., Chakraborty, B., Denn, M. M. & Morris, J. F. Shear jamming and fragility in dense suspensions. Granular Matter 21, 93 (2019).

    Google Scholar 

  35. Royall, C. P., Poon, W. C. K. & Weeks, E. R. In search of colloidal hard spheres. Soft Matter 9, 1 (2013).

    Google Scholar 

  36. Steinhardt, P., Nelson, D. & Ronchetti, M. Bond-orientational order in liquids and glasses. Phys. Rev. B 28, 784 (1983).

    Google Scholar 

  37. Mickel, W., Kapfer, S. C., Schröder-Turk, G. & Mecke, K. Shortcomings of the bond orientational order parameters for the analysis of disordered particulate matter. J. Chem. Phys. 138, 044501 (2013).

    Google Scholar 

  38. Torres-Vargas, G., Fossion, R., Donado, F., López-González, F. & Tapia-Ignacio, C. Scale invariance in a nonvibrating magnetic granular system. Sci. Rep. 10, 11474 (2020).

    Google Scholar 

  39. Torres-Vargas, G., Tapia-Ignacio, C., Donado, F., Fossion, R. & Santiago, J. A. Emergence of scale invariance in the dynamics of an ellipsoidal particle on a granular magnetic bath. Phys. A 572, 125903 (2021).

    Google Scholar 

  40. Fossion, R., Donado, F., Jaguey-Hernández, Y. & Tapia-Ignacio, C. Application of Fourier analysis to an ellipsoidal particle on a granular magnetic bath. Phys. A 630, 129258 (2023).

    Google Scholar 

  41. Delaunay, B. Sur la sphère vide. Bulletin de l’Académie des Sciences de l’URSS, Classe Sci. Math. Nat.6, 793–800 (1934).

  42. Sbalzarini, I. F. & Koumoutsakos, P. Feature point tracking and trajectory analysis for video imaging in cell biology. J. Struct. Biol. 151, 182–195 (2005).

    Google Scholar 

  43. García-Iglesias, L., Rivera, A. L. & Fossion, R. Circadian cycles: A time-series approach. Rev. Mex. Fis. 69, 051101 (2023).

    Google Scholar 

  44. Koopmans, L. H. The Spectral Analysis of Time Series, 22 (Academic Press, 1995).

  45. Bloomfield, P. Fourier Analysis of Time Series: An Introduction, 2 (John Wiley and Sons, 2000).

  46. Fossion, R. et al. Scale invariance as a symmetry in physical and biological systems: Listening to photons, bubbles and heartbeats. AIP Conf. Proc. 1323, 74–90 (2010).

    Google Scholar 

  47. Addison, P. S. Fractals and Chaos: An Illustrated Course, First ed. (IOP Publishing Ltd, 1997).

  48. Eke, A. et al. Physiological time series: Distinguishing fractal noises from motions. Pflugers Arch. 439, 403–415 (2000).

    Google Scholar 

  49. Eke, A., Herman, P., Kocsis, L. & Kozak, L. R. Fractal characterization of complexity in temporal physiological signals. Physiol. Meas. 23, R1-38 (2002).

    Google Scholar 

  50. Halley, J. M. & Inchausti, P. The increasing importance of 1/f-noises as models of ecological variability. Fluct. Noise Lett. 4, R1–R26 (2004).

    Google Scholar 

  51. Su, Z. Y. & Wu, T. Music walk, fractal geometry in music. Phys. A 380, 418–428 (2007).

    Google Scholar 

  52. Halley, J. M. Ecology, evolution and 1f-noise. Trends Ecol. Evolut. 11(1), 33–37 (1996).

    Google Scholar 

  53. Torquato, S. & Stillinger, F. H. Jammed hard-particle packings: From Kepler to Bernal and beyond. Rev. Mod. Phys. 82, 2633–2672 (2010).

    Google Scholar 

  54. Atkinson, S., Stillinger, F. H. & Torquato, S. Existence of isostatic, maximally random jammed monodisperse hard-disk packings. Proc. Natl. Acad. Sci. USA 111, 18436–18441 (2014).

    Google Scholar 

  55. Brouwers, H. J. H. A geometric probabilistic approach to random packing of hard disks in a plane. Soft Matter 19, 8465–8471 (2023).

    Google Scholar 

  56. Reichhardt, C. & Reichhardt, C. J. O. Aspects of jamming in two-dimensional athermal frictionless systems. Soft Matter 10, 2932–2944 (2014).

    Google Scholar 

  57. Boromand, A. et al. The role of deformability in determining the structural and mechanical properties of bubbles and emulsions. Soft Matter 15, 5854–5865 (2019).

    Google Scholar 

  58. O’Hern, C. S., Silbert, L. E., Liu, A. J. & Nagel, S. R. Jamming at zero temperature and zero applied stress: The epitome of disorder. Phys. Rev. E 68, 011306 (2003).

    Google Scholar 

  59. Katgert, G. & van Hecke, M. Jamming and geometry of two-dimensional foams. Europhys. Lett. 92, 34002 (2010).

    Google Scholar 

  60. van Hecke, M. Jamming of soft particles: geometry, mechanics, scaling and isostaticity. J. Phys. Condens. Matter. 22, 033101 (2010).

    Google Scholar 

  61. Sollich, P., Lequeux, F., Hébraud, P. & Cates, M. E. Rheology of soft glassy materials. Phys. Rev. Lett. 78, 2020–2023 (1997).

    Google Scholar 

  62. Antipova, C. G. et al. A comprehensive mechanical testing of polyacrylamide hydrogels: the impact of crosslink density. Polymers 17(6), 737 (2025).

    Google Scholar 

  63. Gong, J. P., Katsuyama, Y., Kurokawa, T. & Osada, Y. Double-network hydrogels with extremely high mechanical strength. Adv. Mater. 15, 1155–1158 (2003).

    Google Scholar 

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Funding

This work was supported by the Dirección General de Asuntos del Personal Académico (DGAPA), Universidad Nacional Autónoma de México (UNAM), through grant PAPIIT IN115124.

The authors also acknowledge financial support from the Sistema Nacional de Investigadoras e Investigadores (SNII) of the Secretaría de Ciencia, Humanidades, Tecnología e Innovación (Secihti), Mexico, including the stipends and Postdoctoral Fellowships awarded to C.T.-I. (CVU: 425089) and F.L.G. (CVU: 607354).

Author information

Authors and Affiliations

  1. Institute of Basic Sciences and Engineering, Autonomous University of the State of Hidalgo, Pachuca, Hidalgo, 42184, Mexico

    Cecilio Tapia-Ignacio & Francisco López-González

  2. Institute of Nuclear Sciences, National Autonomous University of Mexico (UNAM), Mexico City, 04510, Mexico

    Cecilio Tapia-Ignacio & Ruben Yvan Maarten Fossion

  3. Center for Complexity Sciences (C3), National Autonomous University of Mexico (UNAM), Mexico City, 04510, Mexico

    Ruben Yvan Maarten Fossion

  4. Higher School of Mechanical and Electrical Engineering, Zacatenco Unit (ESIME), National Polytechnic Institute (IPN), Mexico City, 07700, Mexico

    Francisco López-González

Authors
  1. Cecilio Tapia-Ignacio
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  2. Ruben Yvan Maarten Fossion
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Contributions

F.L.G. conceived the system, performed experiments, analyzed results, drafted and revised the manuscript and ensured its integrity. C.T.-I. performed Fourier Analysis, reviewed the manuscript and ensured its integrity. R.F. analyzed results, reviewed the manuscript and ensured its integrity. All authors approved the final version.

Corresponding author

Correspondence to Francisco López-González.

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Supplementary Information

Supplementary Video S1 Title: Vibrated reference system without shear Legend: This video shows the evolution of the granular layer under vertical vibration only. It demonstrates that in the absence of shear, the system remains disordered. The video is accelerated to 3269.66% of its original speed (32.7×). (mp4 38060KB)

Supplementary Video S2 Title: System under mechanical annealing with cyclic shear (0.1 Hz) Legend: This video shows the evolution of the system under cyclic shear at 0.1 Hz with a maximum deformation of 0.41 radians. Crystalline domains grow progressively due to the mechanical annealing process. The video is accelerated to 1393.22% of its original speed (13.9×). (mp4 38243KB)

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Tapia-Ignacio, C., Fossion, R.Y.M. & López-González, F. Mechanical annealing in a soft granular layer under cyclic shear at varying frequencies. Sci Rep (2026). https://doi.org/10.1038/s41598-026-39600-6

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  • Received: 28 November 2024

  • Accepted: 06 February 2026

  • Published: 14 February 2026

  • DOI: https://doi.org/10.1038/s41598-026-39600-6

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Supplementary Video S1 Title: Vibrated reference system without shear Legend: This video shows the evolution of the granular layer under vertical vibration only. It demonstrates that in the absence of shear, the system remains disordered. The video is accelerated to 3269.66% of its original speed (32.7×). (mp4 38060KB)Supplementary Video S2 Title: System under mechanical annealing with cyclic shear (0.1 Hz) Legend: This video shows the evolution of the system under cyclic shear at 0.1 Hz with a maximum deformation of 0.41 radians. Crystalline domains grow progressively due to the mechanical annealing process. The video is accelerated to 1393.22% of its original speed (13.9×). (mp4 38243KB)
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