Browsing by Author "Williams MAK"

Now showing 1 - 9 of 9
  • Thumbnail Image
    Item
    3D Robotic Control of Micro-Scale Optical Swarms at an Interface
    (IEEE, 2025-07) Carlisle N; Nock V; Williams MAK; Whitby CP; Chen JLY; Avci E
    Optical force-induced assembly is a promising yet scarcely explored approach for developing functional tools and objects at the microscale, with a wide range of potential applications. Our previous work was the first to investigate the manipulation of these assemblies in the XY plane. Here, we expand on these techniques by systematically exploring optical trap manipulation with the addition of Z-axis control. Manipulation of the Z-axis is referred to as axial displacement and is a viable approach for actively manipulating the assembly morphology. Experiments are conducted for the first time to explore and detail the response of the assembly during active 3D trap manipulation, informing the development of an autonomous control algorithm over the 2D area of the assembly during motion. This control presents techniques to increase assembly stability or alter the area of the assembly for tasks such as passing through constrictions. This work aims to develop the control techniques required to create a unique micromanufacturing approach inspired by the Kilobot thousand-robot swarm.
  • Thumbnail Image
    Item
    A comparative study of tough hydrogen bonding dissipating hydrogels made with different network structures
    (Royal Society of Chemistry, 2021-05-21) Narasimhan BN; Deijs GS; Manuguri S; Ting MSH; Williams MAK; Malmström J
    Hydrogels are excellent soft materials to interface with biological systems. Precise control and tunability of dissipative properties of gels are particularly interesting in tissue engineering applications. In this work, we produced hydrogels with tunable dissipative properties by photopolymerizing a second polymer within a preformed cross-linked hydrogel network of poly(acrylamide). We explored second networks made with different structures and capacity to hydrogen bond with the first network, namely linear poly(acrylic acid) and branched poly(tannic acid). Gels incorporating a second network made with poly(tannic acid) exhibited excellent stiffness (0.35 ± 0.035 MPa) and toughness (1.64 ± 0.26 MJ m-3) compared to the poly(acrylic acid) counterparts. We also demonstrate a strategy to fabricate hydrogels where the dissipation (loss modulus) can be tuned independently from the elasticity (storage modulus) suitable for cell culture applications. We anticipate that this modular design approach for producing hydrogels will have applications in tailored substrates for cell culture studies and in load bearing tissue engineering applications.
  • Thumbnail Image
    Item
    Analytical Investigations into Anomalous Diffusion Driven by Stress Redistribution Events: Consequences of Lévy Flights
    (MDPI (Basel, Switzerland), 2022-09-06) Cleland JD; Williams MAK; Lopes AM; Alfi A; Chen L; David SA
    This research is concerned with developing a generalised diffusion equation capable of describing diffusion processes driven by underlying stress-redistributing type events. The work utilises the development of an appropriate continuous time random walk framework as a foundation to consider a new generalised diffusion equation. While previous work has explored the resulting generalised diffusion equation for jump-timings motivated by stick-slip physics, here non-Gaussian probability distributions of the jump displacements are also considered, specifically Lévy flights. This work illuminates several features of the analytic solution to such a generalised diffusion equation using several known properties of the Fox H function. Specifically demonstrated are the temporal behaviour of the resulting position probability density function, and its normalisation. The reduction of the proposed form to expected known solutions upon the insertion of simplifying parameter values, as well as a demonstration of asymptotic behaviours, is undertaken to add confidence to the validity of this equation. This work describes the analytical solution of such a generalised diffusion equation for the first time, and additionally demonstrates the capacity of the Fox H function and its properties in solving and studying generalised Fokker–Planck equations.
  • Thumbnail Image
    Item
    Interfacial colloidal assembly guided by optical tweezers and tuned via surface charge
    (Elsevier Inc, 2022-09) Pradhan S; Whitby CP; Williams MAK; Chen JLY; Avci E
    HYPOTHESIS: The size, shape and dynamics of assemblies of colloidal particles optically-trapped at an air-water interface can be tuned by controlling the optical potential, particle concentration, surface charge density and wettability of the particles and the surface tension of the solution. EXPERIMENTS: The assembly dynamics of different colloidal particle types (silica, polystyrene and carboxyl coated polystyrene particles) at an air-water interface in an optical potential were systematically explored allowing the effect of surface charge on assembly dynamics to be investigated. Additionally, the pH of the solutions were varied in order to modulate surface charge in a controllable fashion. The effect of surface tension on these assemblies was also explored by reducing the surface tension of the supporting solution by mixing ethanol with water. FINDINGS: Silica, polystyrene and carboxyl coated polystyrene particles showed distinct assembly behaviours at the air-water interface that could be rationalised taking into account changes in surface charge (which in addition to being different between the particles could be modified systematically by changing the solution pH). Additionally, this is the first report showing that wettability of the colloidal particles and the surface tension of the solution are critical in determining the resulting assembly at the solution surface.
  • Thumbnail Image
    Item
    Modeling multiple duplex DNA attachments in a force-extension experiment
    (Cell Press, 2022-03-09) Raudsepp A; Williams MAK; Jameson GB; Enderlein J
    Optical tweezers-based DNA stretching often relies on tethering a single end-activated DNA molecule between optically manipulated end-binding beads. Measurement success can depend on DNA concentration. At lower DNA concentrations tethering is less common, and many trials may be required to observe a single-molecule stretch. At higher DNA concentrations tethering is more common; however, the resulting force-extensions observed are more complex and may vary from measurement to measurement. Typically these more complex results are attributed to the formation of multiple tethers between the beads; however, to date there does not appear to have been a critical examination of this hypothesis or the potential usefulness of such data. Here we examine stretches at a higher DNA concentration and use analysis and simulation to show how the more complex force-extensions observed can be understood in terms of multiple DNA attachments.
  • Thumbnail Image
    Item
    On the origin of optical rotation changes during the κ-carrageenan disorder-to-order transition
    (Elsevier Ltd., 2024-06-01) Westberry BP; Rio M; Waterland MR; Williams MAK
    It is well established that solutions of both polymeric and oligomeric κ-carrageenan exhibit a clear change in optical rotation (OR), in concert with gel-formation for polymeric samples, as the solution is cooled in the presence of certain ions. The canonical interpretation - that this OR change reflects a 'coil-to-helix transition' in single chains - has seemed unambiguous; the solution- or 'disordered'-state structure has ubiquitously been assumed to be a 'random coil', and the helical nature of carrageenan in the solid-state was settled in the 1970s. However, recent work has found that κ-carrageenan contains substantial helical secondary structure elements in the disordered-state, raising doubts over the validity of this interpretation. To investigate the origins of the OR, density-functional theory calculations were conducted using atomic models of κ-carrageenan oligomers. Changes were found to occur in the predicted OR owing purely to dimerization of chains, and - together with the additional effects of slight changes in conformation that occur when separated helical chains form double-helices - the predicted OR changes are qualitatively consistent with experimental results. These findings contribute to a growing body of evidence that the carrageenan 'disorder-to-order' transition is a cooperative process, and have further implications for the interpretation of OR changes demonstrated by macromolecules in general.
  • Thumbnail Image
    Item
    Optical microlever assisted DNA stretching
    (Optica Publishing Group, 2021-08-02) Andrew P-K; Raudsepp A; Fan D; Staufer U; Williams MAK; Avci E
    Optical microrobotics is an emerging field that has the potential to improve upon current optical tweezer studies through avenues such as limiting the exposure of biological molecules of interest to laser radiation and overcoming the current limitations of low forces and unwanted interactions between nearby optical traps. However, optical microrobotics has been historically limited to rigid, single-body end-effectors rather than even simple machines, limiting the tasks that can be performed. Additionally, while multi-body machines such as microlevers exist in the literature, they have not yet been successfully demonstrated as tools for biological studies, such as molecule stretching. In this work we have taken a step towards moving the field forward by developing two types of microlever, produced using two-photon absorption polymerisation, to perform the first lever-assisted stretches of double-stranded DNA. The aim of the work is to provide a proof of concept for using optical micromachines for single molecule studies. Both styles of microlevers were successfully used to stretch single duplexes of DNA, and the results were analysed with the worm-like chain model to show that they were in good agreement.
  • Thumbnail Image
    Item
    Optical Micromachines for Biological Studies
    (MDPI (Basel, Switzerland), 13/02/2020) Andrew P-K; Williams MAK; Avci E
    Optical tweezers have been used for biological studies since shortly after their inception. However, over the years research has suggested that the intense laser light used to create optical traps may damage the specimens being studied. This review aims to provide a brief overview of optical tweezers and the possible mechanisms for damage, and more importantly examines the role of optical micromachines as tools for biological studies. This review covers the achievements to date in the field of optical micromachines: improvements in the ability to produce micromachines, including multi-body microrobots; and design considerations for both optical microrobots and the optical trapping set-up used for controlling them are all discussed. The review focuses especially on the role of micromachines in biological research, and explores some of the potential that the technology has in this area.
  • Thumbnail Image
    Item
    Progress toward Plug-and-Play Polymer Strings for Optical Tweezers Experiments: Concatenation of DNA Using Streptavidin Linkers
    (American Chemical Society, 2022-02-22) Mohandas N; Kent LM; Raudsepp A; Jameson GB; Williams MAK
    Streptavidin is a tetrameric protein that is renowned for its strong binding to biotin. The robustness and strength of this noncovalent coupling has led to multitudinous applications of the pairing. Within the streptavidin tetramer, each protein monomer has the potential to specifically bind one biotin-bearing moiety. Herein, by separating various streptavidin species that have had differing numbers of their four potential binding sites blocked, several different types of "linking hub" were obtained, each with a different valency. The identification of these species and the study of the plugging process used to block sites during their preparation were carried out using capillary electrophoresis. Subsequently, a specific species, namely, a trans-divalent linker, in which the two open biotin-binding pockets are approximately opposite one another, was used to concatenate two ∼5 kb pieces of biotin-terminated double-stranded DNA. Following the incubation of this DNA with the prepared linker, a fraction of ∼10 kb strings was identified using gel electrophoresis. Finally, these concatenated DNA strings were stretched in an optical tweezer experiment, demonstrating the potential of the methodology for coupling and extending molecules for use in single-molecule biophysical experiments.