arXiv subjects

Luca Giomi

Publications and source records attributed to Luca Giomi.

At least 37 records · Page 2Linked to original sources

arXiv2021

Self-assembly dynamics of reconfigurable colloidal molecules

Colloidal molecules are designed to mimic their molecular analogues through their anisotropic shape and interactions. However, current experimental realizations are missing the structural flexibility present in real molecules thereby restricting their use as model systems. We overcome this limitation by assembling reconfigurable colloidal molecules from silica particles functionalized with mobile DNA linkers in high yields. We achieve this by steering the self-assembly pathway towards the formation of finite-sized clusters by employing high number ratios of particles functionalized with complementary DNA strands. The size ratio of the two species of particles provides control over the overall cluster size, or, "valence", as well as the degree of reconfigurability. The bond flexibility provided by the mobile linkers allows the successful assembly of colloidal clusters with the geometrically expected maximum valence. We quantitatively examine the self-assembly dynamics of these flexible colloidal molecules by a combination of experiments, molecular dynamics simulations, and an analytical model. Our "flexible colloidal molecules" are exciting building blocks for investigating and exploiting the self-assembly of complex hierarchical structures, photonic crystals and colloidal meta-materials.

cond-mat.soft↗

arXiv2021

Faceting and flattening of emulsion droplets: a mechanical model

When cooled down, emulsion droplets stabilized by a frozen interface of alkane molecules and surfactants have been observed to undergo a spectacular sequence of morphological transformations: from spheres to faceted icosahedra, down to flattened liquid platelets. While generally ascribed to the interplay between the elasticity of the frozen interface and surface tension, the physical mechanisms underpinning these transitions have remained elusive, despite different theoretical pictures having been proposed in recent years. In this article, we introduce a comprehensive mechanical model of morphing emulsion droplets, which quantitatively accounts for various experimental observations, including the scaling behavior of the faceting transition. Our analysis highlights the role of gravity and the spontaneous curvature of the frozen interface in determining the specific transition pathway.

cond-mat.soft↗

arXiv2021

Reply to Comment on "Faceting and flattening of emulsion droplets: a mechanical model" by Haas et al

In their Comment [arXiv:2102.03842], Haas et al. advance two hypotheses on the nature of the shape transformations observed in surfactant-stabilized emulsion droplets, as the theoretical models that us [Phys. Rev. Lett. 126, 038001 (2021)] and others [P. A. Haas et al. Phys. Rev. Lett. 118, 088001 (2017), Phys. Rev. Research 1, 023017 (2019)] have introduced to account for these observations. (1) Because of the different surfactants used in experimental studies, the physical mechanisms underpinning the shape transformations may, in fact, differ in spite of the extraordinary resemblance in the output. (2) The theoretical models are mathematically equivalent by virtue of the small magnitude of the stretching and gravitational energies. In this Reply, we argue that neither of these hypotheses is well justified.

cond-mat.soft↗

arXiv2021

Hydrodynamic theory of $p-$atic liquid crystals

We formulate a comprehensive hydrodynamic theory of two-dimensional liquid crystals with generic $p-$fold rotational symmetry, also known as $p-$atics, of which mematics $(p=2)$ and hexatics $(p=6)$ are the two best known examples. Previous hydrodynamic theories of $p-$atics are characrerized by continuous ${\rm O}(2)$ rotational symmetry, which is higher than the discrete rotational symmetry of $p-$atic phases. By contrast, here we demonstrate that the discrete rotational symmetry allows the inclusion of additional terms in the hydrodynamic equations, which, in turn, lead to novel phenomena, such as the possibility of flow alignment at high shear rates, even for $p>2$. Furthermore, we show that any finite imposed shear will induce long-ranged orientational order in any $p-$atic liquid crystal, in contrast to the quasi-long-ranged order that occurs in the absence of shear. The induced order parameter scales like a non-universal power of the applied shear rate at small shear rates.

cond-mat.soft↗

arXiv2021

Trade-offs in phenotypic noise synchronize emergent topology to actively enhance transport in microbial environments

Phenotypic noise underpins homeostasis and fitness of individual cells. Yet, the extent to which noise shapes cell-to-population properties in microbial active matter remains poorly understood. By quantifying variability in confluent \textit{E.coli} strains, we catalogue noise across different phenotypic traits. The noise, measured over different temperatures serving as proxy for cellular activity, spanned more than two orders of magnitude. The maximum noise was associated with the cell geometry and the critical colony area at the onset of mono-to-multilayer transition (MTMT), while the lower bound was set by the critical time of the MTMT. Our results, supported by a hydrodynamic model, suggest that a trade-off between the noise in the cell geometry and the growth rate can lead to the self-regulation of the MTMT timing. The MTMT cascades synchronous emergence of hydrodynamic fields, actively enhancing the micro-environmental transport. Our results highlight how interplay of phenotypic noise triggers emergent deterministic properties, and reveal the role of multifield topology--of the colony structure and hydrodynamics--to insulate confluent systems from the inherent noise associated with natural cell-environment settings.

physics.bio-ph↗

arXiv2021

Defect-mediated dynamics of coherent structures in active nematics

Active fluids, such as cytoskeletal filaments, bacterial colonies and epithelial cell layers, exhibit distinctive orientational coherence, often characterized by nematic order and topological defects. By contrast, little is known about positional coherence -- i.e., how a hidden dynamic skeleton organizes the underlying chaotic motion -- despite this being one of their most prominent and experimentally accessible features. Using a combination of dynamical systems theory, experiments on two-dimensional mixtures of microtubules and kinesin and hydrodynamic simulations, we characterize positional coherence in active nematics. These coherent structures can be identified in the framework of Lagrangian dynamics as moving attractors and repellers, which orchestrate complex motion. To understand the interaction of positional and orientational coherence on the dynamics of defects, we then analysed observations and simulations and see that +1/2 defects move and deform the attractors, thus functioning as control centers for collective motion. Additionally, we find that regions around isolated +1/2 defects undergo high bending and low stretching/shearing deformations, consistent with the local stress distribution. The stress is minimum at the defect, while high differential stress along the defect orientation induces folding. Our work offers a new perspective to describe self-organization in active fluids, with potential applications to multicellular systems.

cond-mat.soft↗

arXiv2021

Mono-to-multilayer transition in growing bacterial colonies

The transition from monolayers to multilayered structures in bacterial colonies is a fundamental step in biofilm development. Observed across different morphotypes and species, this transition is triggered within freely growing bacterial microcolonies comprising a few hundred cells. Using a combination of numerical simulations and analytical modeling, here we demonstrate that this transition originates from the competition between growth-induced in-plane active stresses and vertical restoring forces, due to the cell-substrate interactions. Using a simple chainlike colony of laterally confined cells, we show that the transition sets when individual cells become unstable to rotations, thus it is localized and mechanically deterministic. Asynchronous cell division renders the process stochastic, so that all the critical parameters that control the onset of the transition are continuously distributed random variables. Here we demonstrate that the occurrence of the first division in the colony can be approximated as a Poisson process in the limit of large cells numbers. This allows us to approximately calculate the probability distribution function of the position and time associated with the first extrusion. The rate of such a Poisson process can be identified as the order parameter of the transition, thus highlighting its mixed deterministic-stochastic nature.

cond-mat.soft↗

arXiv2021

Topology-driven ordering of flocking matter

When interacting motile units self-organize into flocks, they realize one of the most robust ordered state found in nature. However, after twenty five years of intense research, the very mechanism controlling the ordering dynamics of both living and artificial flocks has remained unsettled. Here, combining active-colloid experiments, numerical simulations and analytical work, we explain how flocking liquids heal their spontaneous flows initially plagued by collections of topological defects to achieve long-ranged polar order even in two dimensions. We demonstrate that the self-similar ordering of flocking matter is ruled by a living network of domain walls linking all $\pm 1$ vortices, and guiding their annihilation dynamics. Crucially, this singular orientational structure echoes the formation of extended density patterns in the shape of interconnected bow ties. We establish that this double structure emerges from the interplay between self-advection and density gradients dressing each $-1$ topological charges with four orientation walls. We then explain how active Magnus forces link all topological charges with extended domain walls, while elastic interactions drive their attraction along the resulting filamentous network of polarization singularities. Taken together our experimental, numerical and analytical results illuminate the suppression of all flow singularities, and the emergence of pristine unidirectional order in flocking matter.

cond-mat.soft↗

arXiv2021

Supported lipid membranes with designed geometry

The membrane curvature of cells and intracellular compartments continuously adapts to enable cells to perform vital functions, from cell division to signal trafficking. Understanding how membrane geometry affects these processes in vivo is challenging because of the membrane complexity as well as the short time and small length scales involved. By contrast, in vitro model membranes with engineered curvature provide a versatile platform for this investigation and applications to biosensing and biocomputing. However, a general route to the fabrication of lipid membranes with prescribed curvature and high spatial resolution is still missing. Here, we present a strategy that overcomes these challenges and achieve lipid membranes with designed shape by combining 3D micro-printing and replica-molding lithography to create scaffolds with virtually any geometry and high spatial resolution. The resulting supported lipid membranes are homogeneous, fluid, and can form chemically distinct lipid domains. These features are essential for understanding curvature-dependent cellular processes and developing programmable bio-interfaces for living cells and nanostructures.

cond-mat.soft↗

arXiv2021

Confinement-induced self-organization in growing bacterial colonies

We investigate the emergence of global alignment in colonies of dividing rod-shaped cells under confinement. Using molecular dynamics simulations and continuous modeling, we demonstrate that geometrical anisotropies in the confining environment give rise to imbalance in the normal stresses, which, in turn, drives a collective rearrangement of the cells. This behavior crucially relies on the colony's solid-like mechanical response at short time scales and can be recovered within the framework of active hydrodynamics upon modeling bacterial colonies as growing viscoelastic gels characterized by Maxwell-like stress relaxation.

cond-mat.soft↗

arXiv2021

Metastability of lipid necks via geometric triality

"Necks" are features of lipid membranes characterized by an uniquley large curvature, functioning as bridges between different compartments. These features are ubiquitous in the life-cycle of the cell and instrumental in processes such as division, extracellular vesicles uptake and cargo transport between organelles, but also in life-threatening conditions, as in the endocytosis of viruses and phages. Yet, the very existence of lipid necks challenges our understanding of membranes biophysics: their curvature, often orders of magnitude larger than elsewhere, is energetically prohibitive, even with the arsenal of molecular machineries and signalling pathways that cells have at their disposal. Using a geometric triality, namely a correspondence between three different classes of geometric objects, here we demonstrate that lipid necks are in fact metastable, thus can exist for finite, but potentially long times even in the absence of stabilizing mechanisms. This framework allows us to explicitly calculate the forces a corpuscle must overcome in order to penetrate cellular membranes, thus paving the way for a predictive theory of endo/exo-cytic processes.

cond-mat.soft↗

arXiv2020

Topological waves in passive and active fluids on curved surfaces: a unified picture

We investigate the occurrence of topologically protected waves in classical fluids confined on curved surfaces. Using a combination of topological band theory and real space analysis, we demonstrate the existence of a system-independent mechanism behind topological protection in two-dimensional passive and active fluids. This allows us to formulate an index theorem linking the number of modes, determined by the topology of Fourier space, to the real space topology of the surface on which they are hosted. With this framework in hand, we review two examples of topological waves in two-dimensional fluids, namely oceanic shallow-water waves propagating on the Earth's rotating surface and momentum waves in active polar fluids spontaneously "flocking" on substrates endowed with a ${\rm U}(1)$ isometry (e.g. surfaces of revolution). Our work suggests some simple rules to engineer topological modes on surfaces in passive and active soft matter systems.

cond-mat.soft↗

arXiv2020

Measuring Gaussian rigidity using curved substrates

The Gaussian (saddle splay) rigidity of fluid membranes controls their equilibrium topology but is notoriously difficult to measure. In lipid mixtures, typical of living cells, linear interfaces separate liquid ordered (LO) from liquid disordered (LD) bilayer phases at subcritical temperatures. Here we consider such membranes supported by curved supports that thereby control the membrane curvatures. We show how spectral analysis of the fluctuations of the LO-LD interface provides a novel way of measuring the difference in Gaussian rigidity between the two phases. We provide a number of conditions for such interface fluctuations to be both experimentally measurable and sufficiently sensitive to the value of the Gaussian rigidity, whilst remaining in the perturbative regime of our analysis.

cond-mat.soft↗

arXiv2020

Dislocation screening in crystals with spherical topology

Whereas disclination defects are energetically prohibitive in two-dimensional flat crystals, their existence is necessary in crystals with spherical topology, such as viral capsids, colloidosomes or fullerenes. Such a geometrical frustration gives rise to large elastic stresses, which render the crystal unstable when its size is significantly larger than the typical lattice spacing. Depending on the compliance of the crystal with respect to stretching and bending deformations, these stresses are alleviated by either a local increase of the intrinsic curvature in proximity of the disclinations or by the proliferation of excess dislocations, often organized in the form of one-dimensional chains known as "scars". The associated strain field of the scars is such to counterbalance the one resulting from the isolated disclinations. Here, we develop a continuum theory of dislocation screening in two-dimensional closed crystals with genus one. Upon modeling the flux of scars emanating from a given disclination as an independent scalar field, we demonstrate that the elastic energy of closed two-dimensional crystals with various degrees of asphericity can be expressed as a simple quadratic function of the screened topological charge of the disclinations, both at zero and finite temperature. This allows us to predict the optimal density of the excess dislocations as well as the minimal stretching energy attained by the crystal.

cond-mat.soft↗

arXiv2020

Chiral stresses in nematic cell monolayers

Recent experiments on monolayers of spindle-like cells plated on adhesive stripe-shaped domains have provided a convincing demonstration that certain types of collective phenomena in epithelia are well described by active nematic hydrodynamics. While recovering some of the hallmark predictions of this framework, however, these experiments have also revealed a number of unexpected features that could be ascribed to the existence of chirality over length scales larger than the typical size of a cell. In this article we elaborate on the microscopic origin of chiral stresses in nematic cell monolayers and investigate how chirality affects the motion of topological defects, as well as the collective motion in stripe-shaped domains. We find that chirality introduces a characteristic asymmetry in the collective cellular flow, from which the ratio between chiral and non-chiral active stresses can be inferred by particle-image-velocimetry measurements. Furthermore, we find that chirality changes the nature of the spontaneous flow transition under confinement and that, for specific anchoring conditions, the latter has the structure of an imperfect pitchfork bifurcation.

cond-mat.soft↗

arXiv2019

Lipid exchange enhances geometric pinning in multicomponent membranes on patterned substrates

Experiments on supported lipid bilayers featuring liquid ordered/disordered domains have shown that the spatial arrangement of the lipid domains and their chemical composition are strongly affected by the curvature of the substrate. Furthermore, theoretical predictions suggest that both these effects are intimately related with the closed topology of the bilayer. In this work, we test this hypothesis by fabricating supported membranes consisting of colloidal particles of various shapes lying on a flat substrate. A single lipid bilayer coats both colloids and substrate, allowing local lipid exchange between them, thus rendering the system thermodynamically open, i.e. able to exchange heat and molecules with an external reservoir in the neighborhood of the colloid. By reconstructing the Gibbs phase diagram for this system, we demonstrate that the free-energy landscape is directly influenced by the geometry of the colloid. In addition, we find that local lipid exchange enhances the pinning of the liquid disordered phase in highly curved regions. This allows us to provide estimates of the bending moduli difference of the domains. Finally, by combining experimental and numerical data, we forecast the outcome of possible experiments on catenoidal and conical necks and show that these geometries could greatly improve the precision of the current estimates of the bending moduli.

cond-mat.soft↗

arXiv2019

How to puncture a biomembrane: elastic versus entropic rupture

A very common strategy to penetrate the cell membrane and access the internal compartment, consists of using sharp tips or nano needles. However recent experiments of cell penetration by atomic force microscopy tips show, contrary to expectations, a weak dependence of penetration force on the curvature of the tip. Using molecular dynamics simulations and analytical arguments, here we show that membrane disruption can be driven either by elastic or entropic forces depending on the membrane size. Our findings have potentially relevant implications in tissue engineering and drug delivery, as they help assessing the effectiveness of the most common membranes penetration methods.

cond-mat.soft↗

arXiv2019

Contour models of cellular adhesion

The development of traction-force microscopy, in the past two decades, has created the unprecedented opportunity of performing direct mechanical measurements on living cells as they adhere or crawl on uniform or micro-patterned substrates. Simultaneously, this has created the demand for a theoretical framework able to decipher the experimental observations, shed light on the complex biomechanical processes that govern the interaction between the cell and the extracellular matrix and offer testable predictions. Contour models of cellular adhesion, represent one of the simplest and yet most insightful approach in this problem. Rooted in the paradigm of active matter, these models allow to explicitly determine the shape of the cell edge and calculate the traction forces experienced by the substrate, starting from the internal and peripheral contractile stresses as well as the passive restoring forces and bending moments arising within the actin cortex and the plasma membrane. In this chapter I provide a general overview of contour models of cellular adhesion and review the specific cases of cells equipped with isotropic and anisotropic actin cytoskeleton as well as the role of bending elasticity.

physics.bio-ph↗