Miracle-dz/UniFAR-FTUs huggingface dataset:
Traffic Jams Reduce Hydrolytic Efficiency of Cellulase on Cellulose Surface

High-speed atomic force microscopy tracks single-molecule dynamics of cellulose degradation into fermentable sugar molecules. A deeper mechanistic understanding of the saccharification of cellulosic biomass could enhance the efficiency of biofuels development. We report here the real-time visualization of crystalline cellulose degradation by individual cellulase enzymes through use of an advanced version of high-speed atomic force microscopy. Trichoderma reesei cellobiohydrolase I (TrCel7A) molecules were observed to slide unidirectionally along the crystalline cellulose surface but at one point exhibited collective halting analogous to a traffic jam. Changing the crystalline polymorphic form of cellulose by means of an ammonia treatment increased the apparent number of accessible lanes on the crystalline surface and consequently the number of moving cellulase molecules. Treatment of this bulky crystalline cellulose simultaneously or separately with T. reesei cellobiohydrolase II (TrCel6A) resulted in a remarkable increase in the proportion of mobile enzyme molecules on the surface. Cellulose was completely degraded by the synergistic action between the two enzymes.
Avocado Oil Improves Mitochondrial Function and Decreases Oxidative Stress in Brain of Diabetic Rats

Diabetic encephalopathy is a diabetic complication related to the metabolic alterations featuring diabetes. Diabetes is characterized by increased lipid peroxidation, altered glutathione redox status, exacerbated levels of ROS, and mitochondrial dysfunction. Although the pathophysiology of diabetic encephalopathy remains to be clarified, oxidative stress and mitochondrial dysfunction play a crucial role in the pathogenesis of chronic diabetic complications. Taking this into consideration, the aim of this work was to evaluate the effects of 90-day avocado oil intake in brain mitochondrial function and oxidative status in streptozotocin-induced diabetic rats (STZ rats). Avocado oil improves brain mitochondrial function in diabetic rats preventing impairment of mitochondrial respiration and mitochondrial membrane potential (ΔΨm), besides increasing complex III activity. Avocado oil also decreased ROS levels and lipid peroxidation and improved the GSH/GSSG ratio as well. These results demonstrate that avocado oil supplementation prevents brain mitochondrial dysfunction induced by diabetes in association with decreased oxidative stress.
The Hemophilic Joints

Recurrent hemarthroses in childhhood before the initiation of primary prophylaxis will result in joint damage after a decade or later. The best way that we have today to protecting against hemophilic arthropathy is primary prophylaxis. The decision to institute early full prophylaxis by means of a port (central venous access device) has to be balanced against the child’s bleeding tendency, the family’s social situation and the experience of the specific hemophilia center. The reported complication rates for infection and thrombosis have varied considerably from center to center. Risk of infection can be reduced by repeated education of patients and staff, effective surveillance routines and limitations on the number of individuals allowed to use the device. In discussing options for early therapy, the risks and benefits should be thoroughly discussed with the parents. From a practical point of view, primary prophylaxis together with synovectomy (radioactive, chemical, arthroscopic, or open) to avoid joint bleeding, can help halt hemophilic synovitis. Radiosynovectomy is a relatively simple, virtually painless and inexpensive treatment for chronic hemophilic synovitis, even in patients with inhibitors and must be the best choice for patients with persistent synovitis (which must be confirmed by US and/or MRI). Arthroscopic joint debridement may be indicated in younger hemophiliacs when there is relative preservation of the joint architecture and congruity, after the failure of three radiosynovectomies with a 6-month interval, and when joint replacement is not considered to be a viable alternative. Total joint arthroplasty should be indicated in hemophiliacs with severe joint pain and disability, including those who are HIV-positive. Hemophilia is a risk factor for infection after total joint arthroplasty. An extended period (2-3 weeks) of adequate hemostatic function is necessary to achieve normal healing after orthopedic procedures in hemophilia.
Exploiting Spontaneous Transmissions for Broadcasting and Leader Election in Radio Networks

We study two fundamental communication primitives: broadcasting and leader election in the classical model of multi-hop radio networks with unknown topology and without collision detection mechanisms. It has been known for almost 20 years that in undirected networks with n nodes and diameter D, randomized broadcasting requires Ω(D log t n/D + log2n) rounds in expectation, assuming that uninformed nodes are not allowed to communicate (until they are informed). Only very recently, Haeupler and Wajc (PODC'2016) showed that this bound can be slightly improved for the model with spontaneous transmissions, providing an O(D(log n log log n)/(log D) + logO(1)n)-time broadcasting algorithm. In this paper, we give a new and faster algorithm that completes broadcasting in O(D(log n)/(log D) + logO(1)n) time, with high probability. This yields the first optimal O(D)-time broadcasting algorithm whenever D is polynomial in n. Furthermore, our approach can be applied to design a new leader election algorithm that matches the performance of our broadcasting algorithm. Previously, all fast randomized leader election algorithms have been using broadcasting as their subroutine and their complexity have been asymptotically strictly bigger than the complexity of broadcasting. In particular, the fastest previously known randomized leader election algorithm of Ghaffari and Haeupler (SODA'2013) requires O(D log n/D min(log log n, log n/D) + logO(1)n-time with high probability. Our new algorithm requires O(D(log n)/(log D) + logO(1)n time with high probability, and it achieves the optimal O(D) time whenever D is polynomial in n.
Generation of MHC class I‐restricted cytotoxic T lymphocytes by expression of a viral protein in muscle cells: antigen presentation by non‐muscle cells

Expression of reporter genes in muscle cells has been achieved by intramuscular (i.m.) injection of plasmid DNA expression vectors. We previously demonstrated that this technique is an effective means of immunization to elicit both antibodies capable of conferring homologous protection and cell‐mediated immunity leading to cross‐strain protection against influenza virus challenge in mice. These results suggested that expression of viral proteins by muscle cells can result in the generation of cellular immune responses, including cytotoxic T lymphocytes (CTL). However, because DNA has the potential to be internalized and expressed by other cell types, we sought to determine whether or not induction of CTL required synthesis of antigen in non‐muscle cells and, if not, whether transfer of antigen to antigen‐presenting cells from muscle cells may be involved. In the present study, we demonstrate that transplantation of nucleoprotein (NP)‐transfected myoblasts into syngeneic mice led to the generation of NP‐specific antibodies and CTL, and cross‐strain protective immunity against a lethal challenge with influenza virus. Furthermore, transplantation of NP‐expressing myoblasts (H‐2k) intraperitoneally into F1 hybrid mice (H‐2d × H‐2k) elicited NP CTL restricted by the MHC haplotype of both parental strains. These results indicate that NP expression by muscle cells after transplantation was sufficient to generate protective cell‐mediated immunity, and that induction of the CTL response was mediated, at least in part, by transfer of antigen from the transplanted muscle cells to a host cell.
Structural and Functional Studies of the Promoter Element for Dengue Virus RNA Replication

ABSTRACT The 5′ untranslated region (5′UTR) of the dengue virus (DENV) genome contains two defined elements essential for viral replication. At the 5′ end, a large stem-loop (SLA) structure functions as the promoter for viral polymerase activity. Next to the SLA, there is a short stem-loop that contains a cyclization sequence known as the 5′ upstream AUG region (5′UAR). Here, we analyzed the secondary structure of the SLA in solution and the structural requirements of this element for viral replication. Using infectious DENV clones, viral replicons, and in vitro polymerase assays, we defined two helical regions, a side stem-loop, a top loop, and a U bulge within SLA as crucial elements for viral replication. The determinants for SLA-polymerase recognition were found to be common in different DENV serotypes. In addition, structural elements within the SLA required for DENV RNA replication were also conserved among different mosquito- and tick-borne flavivirus genomes, suggesting possible common strategies for polymerase-promoter recognition in flaviviruses. Furthermore, a conserved oligo(U) track present downstream of the SLA was found to modulate RNA synthesis in transfected cells. In vitro polymerase assays indicated that a sequence of at least 10 residues following the SLA, upstream of the 5′UAR, was necessary for efficient RNA synthesis using the viral 3′UTR as template.
Insect Guild Structure Associated with Eastern Hemlock in the Southern Appalachians

Abstract An assessment of the insect guild structure associated with immature and mature eastern hemlock, Tsuga canadensis (L.) Carrière, at high and low elevations was made before the invasion by the hemlock woolly adelgid, Adelges tsugae (Annand), and elongate hemlock scale, Fiorinia externa Ferris. Guild dynamics were determined among 243 insect species associated with eastern hemlock in the southern Appalachians. Detritivore, hematophage, herbivore, fungivore, parasitoid, predator, scavenger, and transient guild assignments were made. The herbivore and transient guilds were subdivided into chewers, sapsuckers, flower feeders, pollen feeders, pollen/nectar/sap feeders, and seed feeders. A significant association was found between guilds on immature and mature hemlocks at low elevations, but no significant association was found at high elevations. There was also a strong association of phytophagous insects on immature hemlocks and scavengers on mature hemlocks. The observed transient, scavenger, and predator guilds had a significantly lower co-occurrence among species indicating segregation of the species within these guilds. The herbivore guild had a significantly higher co-occurrence among species than the simulated index indicating aggregation of species within this guild across sites. Detritivore, hematophage, and parasitoid guilds did not differ significantly from the simulated community. These results document a diverse and dynamic insect community on eastern hemlock before invasion by hemlock woolly adelgid and elongate hemlock scale.
Impact of oseltamivir treatment on influenza-related lower respiratory tract complications and hospitalizations.

BACKGROUND Influenza causes lower respiratory tract complications (LRTCs), particularly bronchitis and pneumonia, in both otherwise healthy adults and those with underlying conditions. The aim of this study was to assess the effect of oseltamivir treatment on the incidence of LRTCs leading to antibiotic treatment and hospitalizations following influenza illness. METHODS We analyzed prospectively collected data on LRTCs and antibiotic use from 3564 subjects (age range, 13-97 years) with influenzalike illness enrolled in 10 placebo-controlled, double-blind trials of oseltamivir treatment. RESULTS In adults and adolescents with a proven influenza illness, oseltamivir treatment reduced overall antibiotic use for any reason by 26.7% (14.0% vs 19.1% with placebo; P<.001) and the incidence of influenza-related LRTCs resulting in antibiotic therapy by 55% (4.6% vs 10.3% with placebo; P<.001). In those subjects considered at increased risk of complications, 74 (18.5%) of 401 placebo recipients developed an LRTC leading to antibiotic use compared with 45 (12.2%) of 368 oseltamivir recipients (34.0% reduction; P =.02). Hospitalization for any cause occurred in 18 (1.7%) of 1063 placebo recipients compared with 9 (0.7%) of 1350 oseltamivir-treated patients (59% reduction; P =.02). In contrast, among subjects with an influenzalike illness but without a confirmed influenza infection, the incidence of LRTCs (6.7% vs 5.3%), overall antibiotic use (19.7% vs 19.3%), or hospitalizations (1.7% vs 1.9%) was similar between placebo and oseltamivir recipients, respectively. CONCLUSION Oseltamivir treatment of influenza illness reduces LRTCs, antibiotic use, and hospitalization in both healthy and "at-risk" adults.
GROTESQUE: Noisy Group Testing (Quick and Efficient)

Group-testing refers to the problem of identifying (with high probability) a (small) subset of D defectives from a (large) set of N items via a “small” number of “pooled” tests (i.e., tests have a positive outcome if even one of the items being tested in the pool is defective, else they have a negative outcome). For ease of presentation in this work we focus the regime when the number of defectives is sublinear, i.e., D = O (N1-δ) for some δ > 0. The tests may be noiseless or noisy, and the testing procedure may be adaptive (the pool defining a test may depend on the outcome of a previous test), or non-adaptive (each test is performed independent of the outcome of other tests). A rich body of literature demonstrates that Θ(Dlog(N)) tests are information-theoretically necessary and sufficient for the group-testing problem, and provides algorithms that achieve this performance. However, it is only recently that reconstruction algorithms with computational complexity that is sub-linear in N have started being investigated (recent work by [1], [2], [3] gave some of the first such algorithms). In the scenario with adaptive tests with noisy outcomes, we present the first scheme that is simultaneously order-optimal (up to small constant factors) in both the number of tests and the decoding complexity (O(Dlog(N)) in both the performance metrics). The total number of stages of our adaptive algorithm is “small” (O(log(D))). Similarly, in the scenario with non-adaptive tests with noisy outcomes, we present the first scheme that is simultaneously near-optimal in both the number of tests and the decoding complexity (via an algorithm that requires O(Dlog(D) log(N)) tests and has a decoding complexity of O(D(logN + log2 D)). Finally, we present an adaptive algorithm that only requires 2 stages, and for which both the number of tests and the decoding complexity scale as O(D(logN + log2 D)). For all three settings the probability of error of our algorithms scales as O(1=(poly(D)).
The effects of chlordiazepoxide and d-amphetamine during a three-component multiple schedule.

Multiple schedules have been used in behavioral pharmacology research to show that a drug's effect on behavior can be a function of the schedule of reinforcement that supports that behavior. However, less research has examined whether the context of the schedule of reinforcement in a multiple schedule can change the drug's effect on behavior. We examined the effects of acute chlordiazepoxide and d-amphetamine injections on the behavior of two groups of pigeons trained on a three-component multiple schedule with identical schedules of reinforcement in the first and last components. For one group of pigeons reinforcement was unavailable during the middle component (decreased-middle-component). For the second group reinforcement rate was higher during the middle component than during the first or third components (increased-middle-component). In the decreased-middle-component group, chlordiazepoxide (3.2-32 mg/kg) decreased third-component response rates less than it decreased responding in the first component. Conversely, in the increased-middle-component group, chlordiazepoxide (3.2-10 mg/kg) decreased third-component response rates more than in the first component. In both groups, d-amphetamine did not differentially affect response rates across components. These results are consistent with previous research showing that drugs can differentially affect responding to two different schedules of reinforcement during the same session, and suggest that pharmacological preparations may be helpful in elucidating the mechanisms that control multiple schedule interactions.
Efficient parametric coding of transients

In this paper, methods for improved parametric coding of transients are presented. We propose a signal model for coding of transients consisting of a sum of sinusoids each being amplitude-modulated by a different gamma envelope. These envelopes are characterized by an onset time, an attack and a decay parameter. An efficient method for estimating these parameters is presented. Further, methods are proposed that combine this transient model with a constant-amplitude sinusoidal model in order to achieve efficient coding of both stationary and transient signal parts. By rate-distortion optimization using a perceptual distortion measure, we combine variable rate bit allocation and segmentation in an optimal way. Formal, as well as informal, listening tests show that significant improvements can be achieved with the proposed model as compared to a state-of-the-art sinusoidal coder by the combination of optimal segmentation and amplitude modulated sinusoidal audio coding
In Situ Performance Assessment of a Bio-Sourced Insulation Material from an Inverse Analysis of Measurements on a Demonstrator Building

The purpose of this study is to evaluate the potential of bio-sourced material based on cereal straw for an efficient insulation. Decreasing significantly energy consumption of buildings requires not only the very best insulation material for heat loss reduction through the wall but also the reduction of air permeability which can affect automatically the comfort in the building. This is why, propose an insulation material with low thermal conductivity remains insufficient and the evaluation of the performance of the new insulation material in situ in real conditions is an essential step. The experimental building ( PROMETHE demonstrator) is set up with wood frame and multilayered walls composed with cinder blocks and insulation bio-composite based on cereal straw in order to simulate the thermal rehabilitation conditions according the External thermal insulation principle. Each façade is divided in four part with three different insulation bio-composites and naked part for comparison reasons. Hygrothermal sensors are used both inside and outside of the demonstrator, and heat-flux sensor is placed at the cinder blocks biocomposite interface. These in situ measurements are used to compare the efficiency of three bi-sourced materials and for the modeling the hygrothermal behavior of the multilayer wall by using the set of identified parameters in laboratory.
Species abundance distribution results from a spatial analogy of central limit theorem

The frequency distribution of species abundances [the species abundance distribution (SAD)] is considered to be a fundamental characteristic of community structure. It is almost invariably strongly right-skewed, with most species being rare. There has been much debate as to its exact properties and the processes from which it results. Here, we contend that an SAD for a study plot must be viewed as spliced from the SADs of many smaller nonoverlapping subplots covering that plot. We show that this splicing, if applied repeatedly to produce subplots of progressively larger size, leads to the observed shape of the SAD for the whole plot regardless of that of the SADs of those subplots. The widely reported shape of an SAD is thus likely to be driven by a spatial parallel of the central limit theorem, a statistically convergent process through which the SAD arises from small to large scales. Exact properties of the SAD are driven by species spatial turnover and the spatial autocorrelation of abundances, and can be predicted using this information. The theory therefore provides a direct link between SADs and the spatial correlation structure of species distributions, and thus between several fundamental descriptors of community structure. Moreover, the statistical process described may lie behind similar frequency distributions observed in many other scientific fields.
Modelling decomposition and fire behaviour of small samples of a glass‐fibre‐reinforced polyester/balsa‐cored sandwich material

This publication presents the experimental and numerical methods to model the devolatilization process of a glass‐fibre‐reinforced polyester/balsa‐cored sandwich material on small scale. The fundamental modelling of the source term in pyrolysis‐based fire simulations requires as input data the thermochemical properties of solid fuel and the kinetic parameters of the devolatilization process. First, the thermal decomposition of both elements composing the sandwich structure was studied by thermogravimetry coupled with gas analysis, in air and pure nitrogen atmospheres at several heating rates, in order to define a comprehensive multi‐step reaction pathway. A differential equation system is defined to model these decomposition processes. The kinetic parameters were then estimated by solving the system of equations by an inverse problem. Second, the fire behaviour of each element was studied separately and then combined in the sandwich structure on the cone calorimeter. In addition, numerical simulations with Fire Dynamics Simulator were performed to gradually assess the ability of the model(s) to reproduce each element composing the sandwich structure. Numerical and experimental results are compared and then discussed. Overall, the model provides a good agreement with the experimental data and encourages to model higher scales. Copyright © 2012 John Wiley & Sons, Ltd.