A kinetic model describing the processivity of Myosin-V

The precise details of how myosin-V coordinates the biochemical reactions and mechanical motions of its two head elements to engineer effective processive molecular motion along actin filaments remain unresolved. We compare a quantitative kinetic model of the myosin-V walk, consisting of five basic states augmented by two further states to allow for futile hydrolysis and detachments, with experimental results for run lengths, velocities, and dwell times and their dependence on bulk nucleotide concentrations and external loads in both directions. The model reveals how myosin-V can use the internal strain in the molecule to synchronize the motion of the head elements. Estimates for the rate constants in the reaction cycle and the internal strain energy are obtained by a computational comparison scheme involving an extensive exploration of the large parameter space. This scheme exploits the fact that we have obtained analytic results for our reaction network, e.g., for the velocity but also the run length, diffusion constant, and fraction of backward steps. The agreement with experiment is often reasonable but some open problems are highlighted, in particular the inability of such a general model to reproduce the reported dependence of run length on ADP concentration. The novel way that our approach explores parameter space means that any confirmed discrepancies should give new insights into the reaction network model

Variation in relapse frequency and the transmission potential of Plasmodium vivax malaria

There is substantial variation in the relapse frequency of Plasmodium vivax malaria, with fast-relapsing strains in tropical areas, and slow-relapsing strains in temperate areas with seasonal transmission. We hypothesize that much of the phenotypic diversity in P. vivax relapses arises from selection of relapse frequency to optimize transmission potential in a given environment, in a process similar to the virulence trade-off hypothesis. We develop mathematical models of P. vivax transmission and calculate the basic reproduction number R0 to investigate how transmission potential varies with relapse frequency and seasonality. In tropical zones with year-round transmission, transmission potential is optimized at intermediate relapse frequencies of two to three months: slower-relapsing strains increase the opportunity for onward transmission to mosquitoes, but also increase the risk of being outcompeted by faster-relapsing strains. Seasonality is an important driver of relapse frequency for temperate strains, with the time to first relapse predicted to be six to nine months, coinciding with the duration between seasonal transmission peaks. We predict that there is a threshold degree of seasonality, below which fast-relapsing tropical strains are selected for, and above which slow-relapsing temperate strains dominate, providing an explanation for the observed global distribution of relapse phenotypes

Uncoupled Phosphorylation and Activation in Bacterial Chemotaxis - The 2.3 Å structure of an aspartate to lysine mutant at position 13 of CheY

An aspartate to lysine mutation at position 13 of the chemotaxis regulatory protein CheY causes a constitutive tumbly phenotype when expressed at high copy number in vivo even though the mutant protein is not phosphorylatable. These properties suggest that the D13K mutant adopts the active, signaling conformation of CheY independent of phosphorylation, so knowledge of its structure could explain the activation mechanism of CheY. The x-ray crystallographic structure of the CheY D13K mutant has been solved and refined at 2.3 Å resolution to an R-factor of 14.3%. The mutant molecule shows no significant differences in backbone conformation when compared with the wild-type, Mg2+-free structure, but there are localized changes within the active site. The side chain of lysine 13 blocks access to the active site, whereas its epsilon -amino group has no bonding interactions with other groups in the region. Also in the active site, the bond between lysine 109 and aspartate 57 is weakened, and the solvent structure is perturbed. Although the D13K mutant has the inactive conformation in the crystalline form, rearrangements in the active site appear to weaken the overall structure of that region, potentially creating a metastable state of the molecule. If a conformational change is required for signaling by CheY D13K, then it most likely proceeds dynamically, in solution

The WiggleZ Dark Energy Survey: Galaxy Evolution at 0.25 ≤ z ≤ 0.75 Using the Second Red-Sequence Cluster Survey

We study the evolution of galaxy populations around the spectroscopic WiggleZ sample of star-forming galaxies at 0.25 ≤ z ≤ 0.75 using the photometric catalog from the Second Red-Sequence Cluster Survey (RCS2). We probe the optical photometric properties of the net excess neighbor galaxies. The key concept is that the marker galaxies and their neighbors are located at the same redshift, providing a sample of galaxies representing a complete census of galaxies in the neighborhood of star-forming galaxies. The results are compared with those using the RCS WiggleZ Spare-Fibre (RCS-WSF) sample as markers, representing galaxies in cluster environments at 0.25 ≤ z ≤ 0.45. By analyzing the stacked color-color properties of the WiggleZ neighbor galaxies, we find that their optical colors are not a strong function of indicators of star-forming activities such as EW([O II]) or Galaxy Evolution Explorer (GALEX) near-UV luminosity of the markers. The galaxies around the WiggleZ markers exhibit a bimodal distribution on the color-magnitude diagram, with most of them located in the blue cloud. The optical galaxy luminosity functions (GLFs) of the blue neighbor galaxies have a faint-end slope α of ~ –1.3, similar to that for galaxies in cluster environments drawn from the RCS-WSF sample. The faint-end slope of the GLF for the red neighbors, however, is ~ –0.4, significantly shallower than the ~ –0.7 found for those in cluster environments. This suggests that the buildup of the faint end of the red sequence in cluster environments is in a significantly more advanced stage than that in the star-forming and lower galaxy density WiggleZ neighborhoods. We find that the red galaxy fraction (f_red) around the star-forming WiggleZ galaxies has similar values from z ~ 0.3 to z ~ 0.6 with f_red ~ 0.28, but drops to f_red ~ 0.20 at z gsim 0.7. This change of f_red with redshift suggests that there is either a higher rate of star-forming galaxies entering the luminosity-limited sample at z ≳ 0.7, or a decrease in the quenching rate of star formation at that redshift. Comparing to that in a dense cluster environment, the f_red of the WiggleZ neighbors is both considerably smaller and has a more moderate change with redshift, pointing to the stronger and more prevalent environmental influences on galaxy evolution in high-density regions

Consistency of pacing and metabolic responses during 2000-m rowing ergometry

PURPOSE: This study investigated the pacing strategy adopted and the consistency of performance and related physiological parameters across three 2000-m rowing-ergometer tests. METHODS: Fourteen male well-trained rowers took part in the study. Each participant performed three 2000-m rowing-ergometer tests interspersed by 3-7 d. Throughout the trials, respiratory exchange and heart rate were recorded and power output and stroke rate were analyzed over each 500 m of the test. At the completion of the trial, assessments of blood lactate and rating of perceived exertion were measured. RESULTS: Ergometer performance was unchanged across the 3 trials; however, pacing strategy changed from trial 1, which featured a higher starting power output and more progressive decrease in power, to trials 2 and 3, which were characterized by a more conservative start and an end spurt with increased power output during the final 500 m. Mean typical error (TE; %) across the three 2000-m trials was 2.4%, and variability was low to moderate for all assessed physiological variables (TE range = 1.4-5.1%) with the exception of peak lactate (TE = 11.5%). CONCLUSIONS: Performance and physiological responses during 2000-m rowing ergometry were found to be consistent over 3 trials. The variations observed in pacing strategy between trial 1 and trials 2 and 3 suggest that a habituation trial is required before an intervention study and that participants move from a positive to a reverse-J-shaped strategy, which may partly explain conflicting reports in the pacing strategy exhibited during 2000-m rowing-ergometer trials

Generalized Berry Conjecture and mode correlations in chaotic plates

We consider a modification of the Berry Conjecture for eigenmode statistics in wave-bearing systems. The eigenmode correlator is conjectured to be proportional to the imaginary part of the Green's function. The generalization is applicable not only to scalar waves in the interior of homogeneous isotropic systems where the correlator is a Bessel function, but to arbitrary points of heterogeneous systems as well. In view of recent experimental measurements, expressions for the intensity correlator in chaotic plates are derived.Comment: 5 pages, 1 figur

Criteria for dynamically stable decoherence-free subspaces and incoherently generated coherences

We present a detailed analysis of decoherence free subspaces and develop a rigorous theory that provides necessary and sufficient conditions for dynamically stable decoherence free subspaces. This allows us to identify a special class of decoherence free states which rely on incoherent generation of coherences. We provide examples of physical systems that support such states. Our approach employs Markovian master equations and applies primarily to finite-dimensional quantum systems

Limited migration of soluble ionic species in a Siple Dome, Antarctica, ice core

High-resolution (\u3e10 samples a−1) glaciochemical analyses covering the last 110 years from a Siplc Dome, Antarctica, ire core reveal limited migration of certain soluble ionic species (methane sulfonic acid, NO3 − and Mg2+). The observed chemical migration may be due in part to seasonal alternation between less acidic winter (from high sea-salt concentrations) and more acidic summer (from high marine biogenic acid concentrations) layers, common at coastal siles such as Siplc Dome. Exact mechanisms to expla in the migration are unclear, although simple diffusion and gravitational movement are unlikely since new peaks are formed where none previously existed in each case. Initial migration of each species is both shallower and earlier at Siple Dome than at other sites in Antarctica where similar phenomena have been observed, which may be related to the relatively low accumulation rate at Siple Dome (~13.3 cm ice a−1). Migration appears to be limited to either the preceding or following seasonal layer for each species, suggesting that paleoclimatic interpretations based on dala with lower than annual resolution are not likely to be affected

Sea level pressure variability in the Amundsen Sea region inferred from a West Antarctic glaciochemical record

Using European Center for Medium‐Range Weather Forecasts (ECMWF) numerical operational analyses, sea ice extent records, and station pressure data, we investigate the influence of sea level pressure variability in the Amundsen Sea region on a West Antarctic (Siple Dome) glaciochemical record. Empirical orthogonal function analysis of the high‐resolution Siple Dome multivariate ice core chemical time series record (SDEOF1) documents lower tropospheric transport of sea‐salt aerosols to the site. During 1985–1994 the SDEOF1 record of high (low) aerosol transport corresponds to anomalously low (high) sea level pressure (SLP) in the Amundsen Sea region. Spatial correlation patterns between ECMWF monthly SLP fields and the annual SDEOF1 record suggest that a majority of sea‐salt aerosol is transported to Siple Dome during spring (September, October, and November). Analysis of zonal and meridional wind fields supports the SLP/SDEOF1 correlation and suggests the SDEOF1 record is sensitive to changes in regional circulation strength. No relationship is found between sea ice extent and the SDEOF1 record for the period 1973–1994. To investigate the SDEOF1 record prior to ECMWF coverage, a spring transpolar index (STPI) is created, using normalized SLP records from the New Zealand and South America/Antarctic Peninsula sectors, and is significantly correlated (at least 95% c.l.) with the SDEOF1 record on an annual (r = 0.32, p \u3c 0.001) and interannual (3 years; r = 0.51, p \u3c 0.001) basis. Dominant periodicities (3.3 and 7.1 years) in the annual SDEOF1 record (1890–1994 A.D.) suggest that a portion of the recorded interannual variability may be related tropical/extratropical ENSO teleconnections. Changes in the periodic structure of the full (850–1994 A.D.) Siple Dome record suggests a shift in SLP forcing during the Little Ice Age (∼1400–1900 A.D.) interval