629 research outputs found
Turnover and activity-dependent transcriptional control of NompC in the Drosophila ear.
Across their lives, biological sensors maintain near-constant functional outputs despite countless exogenous and endogenous perturbations. This sensory homeostasis is the product of multiple dynamic equilibria, the breakdown of which contributes to age-related decline. The mechanisms of homeostatic maintenance, however, are still poorly understood. The ears of vertebrates and insects are characterized by exquisite sensitivities but also by marked functional vulnerabilities. Being under the permanent load of thermal and acoustic noise, auditory transducer channels exemplify the homeostatic challenge. We show that (1) NompC-dependent mechanotransducers in the ear of the fruit fly Drosophila melanogaster undergo continual replacement with estimated turnover times of 9.1 hr; (2) a de novo synthesis of NompC can restore transducer function in the adult ears of congenitally hearing-impaired flies; (3) key components of the auditory transduction chain, including NompC, are under activity-dependent transcriptional control, likely forming a transducer-operated mechanosensory gain control system that extends beyond hearing organs
Role of disclinations in determining the morphology of deformable fluid interfaces
We study the equilibrium shapes of vesicles, with an in-plane nematic order,
using a Monte-Carlo scheme and show that highly curved shapes, like tubes and
discs, with a striking similarity to the structures engendered by certain
curvature sensing peripheral membrane proteins, can be spontaneously generated
by anisotropic directional curvature with nematic disclinations playing and
important role. We show that the coupling between nematic order and local
curvature could lead to like defects moving towards each other and unlike
defects moving away, in turn leading to tube formation. Thermally induced
defect pair production lead to branched tubular structures. It is also shown
that helical arrangement of the membrane tubes, with nematic field spiraling
around it, is a dominant soft mode of the system.Comment: 6 Figures; Soft Matter, Advance Article 201
Rewriting Logic Semantics of a Plan Execution Language
The Plan Execution Interchange Language (PLEXIL) is a synchronous language
developed by NASA to support autonomous spacecraft operations. In this paper,
we propose a rewriting logic semantics of PLEXIL in Maude, a high-performance
logical engine. The rewriting logic semantics is by itself a formal interpreter
of the language and can be used as a semantic benchmark for the implementation
of PLEXIL executives. The implementation in Maude has the additional benefit of
making available to PLEXIL designers and developers all the formal analysis and
verification tools provided by Maude. The formalization of the PLEXIL semantics
in rewriting logic poses an interesting challenge due to the synchronous nature
of the language and the prioritized rules defining its semantics. To overcome
this difficulty, we propose a general procedure for simulating synchronous set
relations in rewriting logic that is sound and, for deterministic relations,
complete. We also report on two issues at the design level of the original
PLEXIL semantics that were identified with the help of the executable
specification in Maude
Compiling SHIM
Embedded systems demand concurrency for supporting simultaneous actions in their environment and parallel hardware. Although most concurrent programming formalisms are prone to races and non-determinism, some, such as our SHIM (software/hardware integration medium) language, avoid them by design. In particular, the behavior of SHIM programs is scheduling-independent, meaning the I/O behavior of a program is independent of scheduling policies, including the relative execution rates of concurrent processes. The SHIM project demonstrates how a scheduling-independent language simplifies the design, optimization, and verification of concurrent systems. Through examples and discussion, we describe the SHIM language and code generation techniques for both shared-memory and message-passing architectures, along with some verification algorithms
SpikeletFCN: Counting Spikelets from Infield Wheat Crop Images Using Fully Convolutional Networks
Currently, crop management through automatic monitoring is growing momentum, but presents various challenges. One key challenge is to quantify yield traits from images captured automatically. Wheat is one of the three major crops in the world with a total demand expected to exceed 850 million tons by 2050. In this paper we attempt estimation of wheat spikelets from high-definition RGB infield images using a fully convolutional model. We propose also the use of transfer learning and segmentation to improve the model. We report cross validated Mean Absolute Error (MAE) and Mean Square Error (MSE) of 53.0, 71.2 respectively on 15 real field images. We produce visualisations which show the good fit of our model to the task. We also concluded that both transfer learning and segmentation lead to a very positive impact for CNN-based models, reducing error by up to 89%, when extracting key traits such as wheat spikelet counts
Theory of Cylindrical Tubules and Helical Ribbons of Chiral Lipid Membranes
We present a general theory for the equilibrium structure of cylindrical
tubules and helical ribbons of chiral lipid membranes. This theory is based on
a continuum elastic free energy that permits variations in the direction of
molecular tilt and in the curvature of the membrane. The theory shows that the
formation of tubules and helical ribbons is driven by the chirality of the
membrane. Tubules have a first-order transition from a uniform state to a
helically modulated state, with periodic stripes in the tilt direction and
ripples in the curvature. Helical ribbons can be stable structures, or they can
be unstable intermediate states in the formation of tubules.Comment: 43 pages, including 12 postscript figures, uses REVTeX 3.0 and
epsf.st
Non-monotonic variation with salt concentration of the second virial coefficient in protein solutions
The osmotic virial coefficient of globular protein solutions is
calculated as a function of added salt concentration at fixed pH by computer
simulations of the ``primitive model''. The salt and counter-ions as well as a
discrete charge pattern on the protein surface are explicitly incorporated. For
parameters roughly corresponding to lysozyme, we find that first
decreases with added salt concentration up to a threshold concentration, then
increases to a maximum, and then decreases again upon further raising the ionic
strength. Our studies demonstrate that the existence of a discrete charge
pattern on the protein surface profoundly influences the effective interactions
and that non-linear Poisson Boltzmann and Derjaguin-Landau-Verwey-Overbeek
(DLVO) theory fail for large ionic strength. The observed non-monotonicity of
is compared to experiments. Implications for protein crystallization are
discussed.Comment: 43 pages, including 17 figure
Acción : diario de Teruel y su provincia: Año III Número 633 - (11/12/34)
New types of phenotyping tools generate large amounts of data on many aspects of plant physiology and morphology with high spatial and temporal resolution. These new phenotyping data are potentially useful to improve understanding and prediction of complex traits, like yield, that are characterized by strong environmental context dependencies, i.e., genotype by environment interactions. For an evaluation of the utility of new phenotyping information, we will look at how this information can be incorporated in different classes of genotype-to-phenotype (G2P) models. G2P models predict phenotypic traits as functions of genotypic and environmental inputs. In the last decade, access to high-density single nucleotide polymorphism markers (SNPs) and sequence information has boosted the development of a class of G2P models called genomic prediction models that predict phenotypes from genome wide marker profiles. The challenge now is to build G2P models that incorporate simultaneously extensive genomic information alongside with new phenotypic information. Beyond the modification of existing G2P models, new G2P paradigms are required. We present candidate G2P models for the integration of genomic and new phenotyping information and illustrate their use in examples. Special attention will be given to the modelling of genotype by environment interactions. The G2P models provide a framework for model based phenotyping and the evaluation of the utility of phenotyping information in the context of breeding programs.</p
Phase equilibria and glass transition in colloidal systems with short-ranged attractive interactions. Application to protein crystallization
We have studied a model of a complex fluid consisting of particles
interacting through a hard core and a short range attractive potential of both
Yukawa and square-well form. Using a hybrid method, including a self-consistent
and quite accurate approximation for the liquid integral equation in the case
of the Yukawa fluid, perturbation theory to evaluate the crystal free energies,
and mode-coupling theory of the glass transition, we determine both the
equilibrium phase diagram of the system and the lines of equilibrium between
the supercooled fluid and the glass phases. For these potentials, we study the
phase diagrams for different values of the potential range, the ratio of the
range of the interaction to the diameter of the repulsive core being the main
control parameter. Our arguments are relevant to a variety of systems, from
dense colloidal systems with depletion forces, through particle gels,
nano-particle aggregation, and globular protein crystallization.Comment: 20 pages, 10 figure
Evo-devo of human adolescence: beyond disease models of early puberty
Despite substantial heritability in pubertal development, much variation remains to be explained, leaving room for the influence of environmental factors to adjust its phenotypic trajectory in the service of fitness goals. Utilizing evolutionary development biology (evo-devo), we examine adolescence as an evolutionary life-history stage in its developmental context. We show that the transition from the preceding stage of juvenility entails adaptive plasticity in response to energy resources, other environmental cues, social needs of adolescence and maturation toward youth and adulthood. Using the evolutionary theory of socialization, we show that familial psychosocial stress fosters a fast life history and reproductive strategy rather than early maturation being just a risk factor for aggression and delinquency. Here we explore implications of an evolutionary-developmental-endocrinological-anthropological framework for theory building, while illuminating new directions for research
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