Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Nucleation of superfluid-light domains in a quenched dynamics.

ABSTRACT: Strong correlation effects emerge from light-matter interactions in coupled resonator arrays, such as the Mott-insulator to superfluid phase transition of atom-photon excitations. We demonstrate that the quenched dynamics of a finite-sized complex array of coupled resonators induces a first-order like phase transition. The latter is accompanied by domain nucleation that can be used to manipulate the photonic transport properties of the simulated superfluid phase; this in turn leads to an empirical scaling law. This universal behavior emerges from the light-matter interaction and the topology of the array. The validity of our results over a wide range of complex architectures might lead to a promising device for use in scaled quantum simulations.

SUBMITTER: Figueroa J

PROVIDER: S-EPMC6109166 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Nucleation of superfluid-light domains in a quenched dynamics.

Figueroa Joaquín J Rogan José J Valdivia Juan Alejandro JA Kiwi Miguel M Romero Guillermo G Torres Felipe F

Scientific reports 20180824 1

Strong correlation effects emerge from light-matter interactions in coupled resonator arrays, such as the Mott-insulator to superfluid phase transition of atom-photon excitations. We demonstrate that the quenched dynamics of a finite-sized complex array of coupled resonators induces a first-order like phase transition. The latter is accompanied by domain nucleation that can be used to manipulate the photonic transport properties of the simulated superfluid phase; this in turn leads to an empiric ...[more]

PMID: 30143659

Similar Datasets

Quenched pinning and collective dislocation dynamics.

Project description:Several experiments show that crystalline solids deform in a bursty and intermittent fashion. Power-law distributed strain bursts in compression experiments of micron-sized samples, and acoustic emission energies from larger-scale specimens, are the key signatures of the underlying critical-like collective dislocation dynamics - a phenomenon that has also been seen in discrete dislocation dynamics (DDD) simulations. Here we show, by performing large-scale two-dimensional DDD simulations, that the character of the dislocation avalanche dynamics changes upon addition of sufficiently strong randomly distributed quenched pinning centres, present e.g. in many alloys as immobile solute atoms. For intermediate pinning strength, our results adhere to the scaling picture of depinning transitions, in contrast to pure systems where dislocation jamming dominates the avalanche dynamics. Still stronger disorder quenches the critical behaviour entirely.

| S-EPMC4650641 | biostudies-literature

Light-mediated spatial control via photolabile fluorescently quenched peptide cassettes.

Project description:Light-regulatable compounds are finding increasing utility as spatial and temporal probes of biological behavior. An independent measure of successful light-induced structural change is possible when alteration (e.g., activation, deactivation, etc.) of the bioprobe can be directly linked to a fluorescent readout. We have identified a series of photolabile fluorescently quenched cassettes that display extraordinarily large fluorescence enhancements upon photolysis. A pair of cassettes has been inserted into mitochondrial localization sequences to assess an organelle-targeted light-mediated release strategy for controlling biological activity. The peptide constructs are readily absorbed by mitochondria and subsequently can be cleaved in a light-dependent fashion as assessed by the predicted changes in absorbance and fluorescence.

| S-EPMC2819137 | biostudies-literature

Superfluid motion and drag-force cancellation in a fluid of light.

Project description:Quantum fluids of light merge many-body physics and nonlinear optics, revealing quantum hydrodynamic features of light when it propagates in nonlinear media. One of the most outstanding evidence of light behaving as an interacting fluid is its ability to carry itself as a superfluid. Here, we report a direct experimental detection of the transition to superfluidity in the flow of a fluid of light past an obstacle in a bulk nonlinear crystal. In this cavityless all-optical system, we extract a direct optical analog of the drag force exerted by the fluid of light and measure the associated displacement of the obstacle. Both quantities drop to zero in the superfluid regime characterized by a suppression of long-range radiation from the obstacle. The experimental capability to shape both the flow and the potential landscape paves the way for simulation of quantum transport in complex systems.

| S-EPMC5974130 | biostudies-literature

Nucleation and spreading rejuvenate polycomb domains every cell cycle

Project description:Nucleation and spreading rejuvenate polycomb domains every cell cycle

2023-12-01 | GSE209818 | GEO

Actin nucleation by WH2 domains at the autophagosome.

Project description:Autophagy is a catabolic process whereby cytosolic components and organelles are degraded to recycle key cellular materials. It is a constitutive process required for proper tissue homoeostasis but can be rapidly regulated by a variety of stimuli (for example, nutrient starvation and chemotherapeutic agents). JMY is a DNA damage-responsive p53 cofactor and actin nucleator important for cell survival and motility. Here we show that JMY regulates autophagy through its actin nucleation activity. JMY contains an LC3-interacting region, which is necessary to target JMY to the autophagosome where it enhances the autophagy maturation process. In autophagosomes, the integrity of the WH2 domains allows JMY to promote actin nucleation, which is required for efficient autophagosome formation. Thus our results establish a direct role for actin nucleation mediated by WH2 domain proteins that reside at the autophagosome.

| S-EPMC4532831 | biostudies-literature

Structural basis of actin filament nucleation by tandem W domains.

Project description:Spontaneous nucleation of actin is very inefficient in cells. To overcome this barrier, cells have evolved a set of actin filament nucleators to promote rapid nucleation and polymerization in response to specific stimuli. However, the molecular mechanism of actin nucleation remains poorly understood. This is hindered largely by the fact that actin nucleus, once formed, rapidly polymerizes into filament, thus making it impossible to capture stable multisubunit actin nucleus. Here, we report an effective double-mutant strategy to stabilize actin nucleus by preventing further polymerization. Employing this strategy, we solved the crystal structure of AMPPNP-actin in complex with the first two tandem W domains of Cordon-bleu (Cobl), a potent actin filament nucleator. Further sequence comparison and functional studies suggest that the nucleation mechanism of Cobl is probably shared by the p53 cofactor JMY, but not Spire. Moreover, the double-mutant strategy opens the way for atomic mechanistic study of actin nucleation and polymerization.

| S-EPMC3780403 | biostudies-literature

Nucleation and growth mechanisms of hcp domains in compressed iron.

Project description:In our previous work, we have pointed out that the shock-induced phase transition in iron occurs with the help of interface energy which reduces the potential barrier between two phases. Here, through studying the nucleation and growth mechanisms of hcp domains in compressed iron, we find that the flatted-octahedral-structure (FOS) is the primary structural unit of the embryo nucleus and phase interface of hcp domains, and the interfacial energy is reduced via formation of FOSs. The phase transition process can be described by the following four stages: (i) Some atoms deviate from their equilibrium positions with the aid of thermal fluctuations to form FOSs with two different deformation directions in the local region; (ii) FOSs with different deformation directions aggregate to form a thin stratified structure like twin-crystal configuration; (iii) The thin stratified structure undergoes a relative slip to form the new hcp phase; (iv) The hcp phase domain grows up through the formation of new FOSs along the phase boundary. In addition, through comparing the time evolution curves of initial single phase domain, we find that the growth rate of single phase domain depends on the loading way and its occurrence time.

| S-EPMC4053698 | biostudies-other

Rickettsia Sca2 Recruits Two Actin Subunits for Nucleation but Lacks WH2 Domains.

Project description:The Rickettsia ∼1800-amino-acid autotransporter protein surface cell antigen 2 (Sca2) promotes actin polymerization on the surface of the bacterium to drive its movement using an actin comet-tail mechanism. Sca2 mimics eukaryotic formins in that it promotes both actin filament nucleation and elongation and competes with capping protein to generate filaments that are long and unbranched. However, despite these functional similarities, Sca2 is structurally unrelated to eukaryotic formins and achieves these functions through an entirely different mechanism. Thus, while formins are dimeric, Sca2 functions as a monomer. However, Sca2 displays intramolecular interactions and functional cooperativity between its N- and C-terminal domains that are crucial for actin nucleation and elongation. Here, we map the interaction of N- and C- terminal fragments of Sca2 and their contribution to actin binding and nucleation. We find that both the N- and C-terminal regions of Sca2 interact with actin monomers but only weakly, whereas the full-length protein binds two actin monomers with high affinity. Moreover, deletions at both ends of the N- and C-terminal regions disrupt their ability to interact with each other, suggesting that they form a contiguous ring-like structure that wraps around two actin subunits, analogous to the formin homology-2 domain. The discovery of Sca2 as an actin nucleator followed the identification of what appeared to be a repeat of three Wiskott-Aldrich syndrome homology 2 (WH2) domains in the middle of the molecule, consistent with the presence of WH2 domains in most actin nucleators. However, we show here that contrary to previous assumptions, Sca2 does not contain WH2 domains. Instead, our analysis indicates that the region containing the putative WH2 domains is folded as a globular domain that cooperates with other parts of the Sca2 molecule for actin binding and nucleation.

| S-EPMC6369429 | biostudies-literature

Molecular-dynamics simulations of urea nucleation from aqueous solution.

Project description:Despite its ubiquitous character and relevance in many branches of science and engineering, nucleation from solution remains elusive. In this framework, molecular simulations represent a powerful tool to provide insight into nucleation at the molecular scale. In this work, we combine theory and molecular simulations to describe urea nucleation from aqueous solution. Taking advantage of well-tempered metadynamics, we compute the free-energy change associated to the phase transition. We find that such a free-energy profile is characterized by significant finite-size effects that can, however, be accounted for. The description of the nucleation process emerging from our analysis differs from classical nucleation theory. Nucleation of crystal-like clusters is in fact preceded by large concentration fluctuations, indicating a predominant two-step process, whereby embryonic crystal nuclei emerge from dense, disordered urea clusters. Furthermore, in the early stages of nucleation, two different polymorphs are seen to compete.

| S-EPMC4291617 | biostudies-other