118 research outputs found
Effects of confinement on pattern formation in two dimensional systems with competing interactions
Template-assisted pattern formation in monolayers of particles with competing short-range attraction and long-range repulsion interactions (SALR) is studied by Monte Carlo simulations in a simple generic model [N. G. Almarza et al., J. Chem. Phys., 2014, 140, 164708]. We focus on densities corresponding to formation of parallel stripes of particles and on monolayers laterally confined between straight parallel walls. We analyze both the morphology of the developed structures and the thermodynamic functions for broad ranges of temperature T and the separation L between the walls. At low temperature stripes parallel to the boundaries appear, with some corrugation when the distance between the walls does not match the bulk periodicity of the striped structure. The stripes integrity, however, is rarely broken for any L. This structural order is lost at T = T(L) depending on L according to a Kelvin-like equation. Above the Kelvin temperature T(L) many topological defects such as breaking or branching of the stripes appear, but a certain anisotropy in the orientation of the stripes persists. Finally, at high temperature and away from the walls, the system behaves as an isotropic fluid of elongated clusters of various lengths and with various numbers of branches. For L optimal for the stripe pattern the heat capacity as a function of temperature takes the maximum at T = T(L).Peer Reviewe
Formation of Liesegang patterns: Simulations using a kinetic Ising model
A kinetic Ising model description of Liesegang phenomena is studied using
Monte Carlo simulations. The model takes into account thermal fluctuations,
contains noise in the chemical reactions, and its control parameters are
experimentally accessible. We find that noisy, irregular precipitation takes
place in dimension d=2 while, depending on the values of the control
parameters, either irregular patterns or precipitation bands satisfying the
regular spacing law emerge in d=3.Comment: 7 pages, 8 ps figures, RevTe
Macropinocytotic entry of isolated mitochondria in epidermal growth factor-activated human osteosarcoma cells
Mammalian mitochondria can be transferred between cells both in culture and in vivo. There is evidence that isolated mitochondria enter cells by endocytosis, but the mechanism has not been fully characterised. We investigated the entry mechanism of isolated mitochondria into human osteosarcoma (HOS) cells. Initially we confirmed that respiratory-competent cells can be produced following incubation of HOS cells lacking mitochondrial DNA (mtDNA) with functional exogenous mitochondria and selection in a restrictive medium. Treatment of HOS cells with inhibitors of different endocytic pathways suggest that uptake of EGFP-labelled mitochondria occurs via an actin-dependent endocytic pathway which is consistent with macropinocytosis. We later utilised time-lapse microscopy to show that internalised mitochondria were found in large, motile cellular vesicles. Finally, we used confocal imaging to show that EGFP-labelled mitochondria colocalise with a macropinocytic cargo molecule during internalisation, HOS cells produce membrane ruffles interacting with external mitochondria during uptake and EGFP-labelled mitochondria are found within early macropinosomes inside cells. In conclusion our results are consistent with isolated mitochondria being internalised by macropinocytosis in HOS cells.This work was supported by a grant from the Medical Research Council UK (MC_U105697135). We are grateful to Folma Buss for very helpful discussions during the course of this wo
Organizational and dynamical aspects of a small network with two distinct communities : Neo creationists vs. Evolution Defenders
Social impacts and degrees of organization inherent to opinion formation for
interacting agents on networks present interesting questions of general
interest from physics to sociology. We present a quantitative analysis of a
case implying an evolving small size network, i.e. that inherent to the ongoing
debate between modern creationists (most are Intelligent Design (ID) proponents
(IDP)) and Darwin's theory of Evolution Defenders (DED)). This study is carried
out by analyzing the structural properties of the citation network unfolded in
the recent decades by publishing works belonging to members of the two
communities. With the aim of capturing the dynamical aspects of the interaction
between the IDP and DED groups, we focus on key quantities, namely, the
{\it degree of activity} of each group and the corresponding {\it degree of
impact} on the intellectual community at large. A representative measure of the
former is provided by the {\it rate of production of publications} (RPP),
whilst the latter can be assimilated to the{\it rate of increase in citations}
(RIC). These quantities are determined, respectively, by the slope of the time
series obtained for the number of publications accumulated per year and by the
slope of a similar time series obtained for the corresponding citations. The
results indicate that in this case, the dynamics can be seen as geared by
triggered or damped competition. The network is a specific example of marked
heterogeneity in exchange of information activity in and between the
communities, particularly demonstrated through the nodes having a high
connectivity degree, i.e. opinion leaders.Comment: 10 pages, 4 figures, 2 tables, 52 reference
Thymocyte regulatory variant alters transcription factor binding and protects from type 1 diabetes in infants
We recently mapped a genetic susceptibility locus on chromosome 6q22.33 for type 1 diabetes (T1D) diagnosed below the age of 7 years between the PTPRK and thymocyte-selection-associated (THEMIS) genes. As the thymus plays a central role in shaping the T cell repertoire, we aimed to identify the most likely causal genetic factors behind this association using thymocyte genomic data. In four thymocyte populations, we identified 253 DNA sequence motifs underlying histone modifications. The G insertion allele of rs138300818, associated with protection from diabetes, created thymocyte motifs for multiple histone modifications and thymocyte types. In a parallel approach to identifying variants that alter transcription factor binding motifs, the same variant disrupted a predicted motif for Rfx7, which is abundantly expressed in the thymus. Chromatin state and RNA sequencing data suggested strong transcription overlapping rs138300818 in fetal thymus, while expression quantitative trait locus and chromatin conformation data associate the insertion with lower THEMIS expression. Extending the analysis to other T1D loci further highlighted rs66733041 affecting the GATA3 transcription factor binding in the AFF3 locus. Taken together, our results support a role for thymic THEMIS gene expression and the rs138300818 variant in promoting the development of early-onset T1D.Peer reviewe
Numerical study of the critical behavior of the Ashkin-Teller model at a line defect
We consider the Ashkin-Teller model on the square lattice, which is
represented by two Ising models ( and ) having a four-spin
coupling of strength, , between them. We introduce an asymmetric
defect line in the system along which the couplings in the Ising model
are modified. In the Hamiltonian version of the model we study the scaling
behavior of the critical magnetization at the defect, both for and for
spins by density matrix renormalization. For we observe
identical scaling for and spins, whereas for one
model becomes locally ordered and the other locally disordered. This is
different of the critical behavior of the uncoupled model () and is
in contradiction with the results of recent field-theoretical calculations.Comment: 6 pages, 4 figure
Survival-extinction phase transition in a bit-string population with mutation
A bit-string model for the evolution of a population of haploid organisms,
subject to competition, reproduction with mutation and selection is studied,
using mean field theory and Monte Carlo simulations. We show that, depending on
environmental flexibility and genetic variability, the model exhibits a phase
transtion between extinction and survival. The mean-field theory describes the
infinite-size limit, while simulations are used to study quasi-stationary
properties.Comment: 11 pages, 5 figure
Simulated ecology-driven sympatric speciation
We introduce a multi-locus genetically acquired phenotype, submitted to
mutations and with selective value, in an age-structured model for biological
aging. This phenotype describes a single-trait effect of the environment on an
individual, and we study the resulting distribution of this trait among the
population. In particular, our simulations show that the appearance of a double
phenotypic attractor in the ecology induces the emergence of a stable
polymorphism, as observed in the Galapagos finches. In the presence of this
polymorphism, the simulations generate short-term speciation, when mating
preferences are also allowed to suffer mutations and acquire selective value.Comment: 11 pages, 5 figures, 1 table, uses package RevTe
- …