Miracle-dz/UniFAR-FTUs huggingface dataset:
Immuno-identification of Ca2+-induced conformational changes in human gelsolin and brevin

Gelsolin is a 90,000-mol-wt protein with two actin and two high affinity calcium-binding sites that can form complexes with Ca2+ ions and monomeric actin. These complexes will nucleate filament growth and cap the barbed end of filaments, but will not fragment F-actin. Uncomplexed gelsolin severs F-actin. (Bryan, J., and L. M. Coluccio, 1985, J. Cell Biol., 101:1236-1244). These associations with actin are modulated by Ca2+. We have purified and characterized monoclonal antibodies that recognize Ca2+-induced conformational changes in human platelet gelsolin (G) and human plasma brevin (B), a closely related protein. Two hybridomas, 8G5 and 4F8, were adapted to growth in serum- free medium. 8G5 was found to secrete an IgG; 4F8 secretes an IgA. On immunoblots, both antibodies gave a strong reaction if Ca2+ was present, but gave barely detectable reactions if EGTA was used. 8G5 IgG- Sepharose columns retained gelsolin (as GCa2) or brevin (as BCa2) in 0.1 mM CaCl2 containing buffers, but released these molecules when eluted with 4 mM EGTA. 8G5 IgG-Sepharose columns also retained gelsolin- actin-Ca2+ complexes, as GA1Ca2 or higher oligomers from platelet extracts containing 0.1 mM CaCl2. Elution with 4 mM EGTA released material that gel filtration showed to be the EGTA-stable 130,000-mol- wt gelsolin-actin complex, GA1Ca1. The results demonstrate that the 8G5 IgG recognizes a conformation of gelsolin or brevin induced by binding of an easily exchangeable Ca2+ ion. Actin is not required for this conformational change, and the antibody discriminates, for example, GCa2 from G and GCa1. A 4F8 IgA-Sepharose column retained brevin or gelsolin in 0.1 mM CaCl2-containing buffers, but, like the 8G5 IgG, released these molecules when eluted with 4 mM EGTA. The 4F8 IgA column also retained gelsolin or brevin-actin-Ca2+ complexes, for example, as BA1Ca2, or higher oligomers, in 0.1 mM CaCl2. No protein was recovered, however, upon elution with 4 mM EGTA, but elution with 0.1 M glycine- HCl, pH 2.8, released bound brevin or gelsolin and actin. Similarly, preformed brevin-actin-Ca2+ complex, equilibrated with EGTA, was retained by 4F8 IgA-Sepharose. The results demonstrate that the 4F8 IgA recognizes a conformation of gelsolin or brevin that is maintained and presumably induced by binding of a nonexchangeable Ca2+ ion that is trapped in the complex.
Impact of mountain pine beetle outbreaks on forest albedo and radiative forcing, as derived from Moderate Resolution Imaging Spectroradiometer, Rocky Mountains, USA

Mountain pine beetle (Dendroctonus ponderosae) outbreaks in North America are widespread and have potentially large‐scale impacts on albedo and associated radiative forcing. Mountain pine beetle outbreaks in Colorado and southern Wyoming have resulted in persistent and significant increases in both winter albedo (change peaked 10 years post outbreak at 0.06 ± 0.01 and 0.05 ± 0.01, in lodgepole pine (Pinus contorta) and ponderosa pine (Pinus ponderosa) stands, respectively) and spring albedo (change peaked 10 years post outbreak at 0.06 ± 0.01 and 0.04 ± 0.01, in lodgepole pine and ponderosa pine stands, respectively). Instantaneous top‐of‐atmosphere radiative forcing peaked for both lodgepole pine and ponderosa pine stands in winter at 10 years post outbreak at −1.7 ± 0.2 W m−2 and −1.4 ± 0.2 W m−2, respectively. The persistent increase in albedo with time since mountain pine beetle disturbance combined with the continued progression of the attack across the landscape from 1994–2011 resulted in an exponential increase in winter and annual radiative cooling (MW) over time. In 2011 the rate of radiative forcing within the study area reached −982.7 ± 139.0 MW, −269.8 ± 38.2 MW, −31.1 ± 4.4 MW, and −147.8 ± 20.9 MW in winter, spring, summer, and fall, respectively. An increase in radiative cooling has the potential to decrease sensible and/or latent heat flux by reducing available energy. Such changes could affect current mountain pine beetle outbreaks which are influenced by climatic conditions.
Immunogenic Tumor Cell Death for Optimal Anticancer Therapy: The Calreticulin Exposure Pathway

In response to some chemotherapeutic agents such as anthracyclines and oxaliplatin, cancer cells undergo immunogenic apoptosis, meaning that their corpses are engulfed by dendritic cells and that tumor cell antigens are presented to tumor-specific CD8+ T cells, which then control residual tumor cells. One of the peculiarities of immunogenic apoptosis is the early cell surface exposure of calreticulin (CRT), a protein that usually resides in the lumen of the endoplasmic reticulum (ER). When elicited by anthracyclines or oxaliplatin, the CRT exposure pathway is activated by pre-apoptotic ER stress and the phosphorylation of the eukaryotic translation initiation factor eIF2α by the kinase PERK, followed by caspase-8-mediated proteolysis of the ER-sessile protein BAP31, activation of the pro-apoptotic proteins Bax and Bak, anterograde transport of CRT from the ER to the Golgi apparatus and exocytosis of CRT-containing vesicles, finally resulting in CRT translocation onto the plasma membrane surface. Interruption of this complex pathway abolishes CRT exposure, annihilates the immunogenicity of apoptosis, and reduces the immune response elicited by anticancer chemotherapies. We speculate that human cancers that are incapable of activating the CRT exposure pathway are refractory to the immune-mediated component of anticancer therapies. Clin Cancer Res; 16(12); 3100–4. ©2010 AACR.
Differentially expressed seed aging responsive heat shock protein OsHSP18.2 implicates in seed vigor, longevity and improves germination and seedling establishment under abiotic stress

Small heat shock proteins (sHSPs) are a diverse group of proteins and are highly abundant in plant species. Although majority of these sHSPs were shown to express specifically in seed, their potential function in seed physiology remains to be fully explored. Our proteomic analysis revealed that OsHSP18.2, a class II cytosolic HSP is an aging responsive protein as its abundance significantly increased after artificial aging in rice seeds. OsHSP18.2 transcript was found to markedly increase at the late maturation stage being highly abundant in dry seeds and sharply decreased after germination. Our biochemical study clearly demonstrated that OsHSP18.2 forms homooligomeric complex and is dodecameric in nature and functions as a molecular chaperone. OsHSP18.2 displayed chaperone activity as it was effective in preventing thermal inactivation of Citrate Synthase. Further, to analyze the function of this protein in seed physiology, seed specific Arabidopsis overexpression lines for OsHSP18.2 were generated. Our subsequent functional analysis clearly demonstrated that OsHSP18.2 has ability to improve seed vigor and longevity by reducing deleterious ROS accumulation in seeds. In addition, transformed Arabidopsis seeds also displayed better performance in germination and cotyledon emergence under adverse conditions. Collectively, our work demonstrates that OsHSP18.2 is an aging responsive protein which functions as a molecular chaperone and possibly protect and stabilize the cellular proteins from irreversible damage particularly during maturation drying, desiccation and aging in seeds by restricting ROS accumulation and thereby improves seed vigor, longevity and seedling establishment.
Critical behavior of the spin- 3 2 Blume-Capel model in two dimensions

The phase diagram of the spin-3/2 Blume-Capel model in two dimensions is explored by conventional finite-size scaling, conformal invariance and Monte Carlo simulations. The model in its $\tau$-continuum Hamiltonian version is also considered and compared with others spin-3/2 quantum chains. Our results indicate that differently from the standard spin-1 Blume-Capel model there is no multicritical point along the order-disorder transition line. This is in qualitative agreement with mean field prediction but in disagreement with previous approximate renormalization group calculations. We also presented new results for the spin-1 Blume-Capel model.
Iron-Fortified Drinking Water Studies for the Prevention of Children's Anemia in Developing Countries

Anemia and iron deficiency should receive special attention considering their high prevalence and serious consequences. For prevention, globally it is recommended to increase dietary iron intake, iron fortification of industrialized foods, and medical iron supplementation. Food fortification for the prevention of iron deficiency in developing countries should consider carriers locally available and consumed daily, requiring limited infrastructure and technology. Drinking water is the iron carrier we have been working for years for the prevention of iron deficiency and anemia in small children in Brazil. It was shown that studies with iron-fortified drinking water were proved to be effective on children's anemia prevention. Water is found everywhere, consumed daily by everyone may be easily fortified with simple technology, is low priced and was effective on the prevention of children's anemia. Fortification of drinking water with iron was locally implemented with the direct participation of the government and community. Government authorities, health personnel and population were part of the project and responsible for its community implementation. The mayor/municipality permitted and supported the proposal to supply it to children at their day-care centers. To keep the children drinking water iron fortified supply an officially authorized legislation was also approved.
Evidence of Structural Remodeling in the Dyssynchronous Failing Heart

Ventricular remodeling of both geometry and fiber structure is a prominent feature of several cardiac pathologies. Advances in MRI and analytical methods now make it possible to measure changes of cardiac geometry, fiber, and sheet orientation at high spatial resolution. In this report, we use diffusion tensor imaging to measure the geometry, fiber, and sheet architecture of eight normal and five dyssynchronous failing canine hearts, which were explanted and fixed in an unloaded state. We apply novel computational methods to identify statistically significant changes of cardiac anatomic structure in the failing and control heart populations. The results demonstrate significant regional differences in geometric remodeling in the dyssynchronous failing heart versus control. Ventricular chamber dilatation and reduction in wall thickness in septal and some posterior and anterior regions are observed. Primary fiber orientation showed no significant change. However, this result coupled with the local wall thinning in the septum implies an altered transmural fiber gradient. Further, we observe that orientation of laminar sheets become more vertical in the early-activated septum, with no significant change of sheet orientation in the late-activated lateral wall. Measured changes in both fiber gradient and sheet structure will affect both the heterogeneity of passive myocardial properties as well as electrical activation of the ventricles.
Dehydration of Ethanol into Ethylene over H-MOR: A Quantum Chemical Investigation of Possible Reaction Mechanisms in the Presence of Water

The conversion of ethanol to ethylene, which is one of the most important feed stocks for the petrochemical industry, is of particular commercial interest. Two mechanisms, stepwise and concerted, of the ethanol dehydration to ethylene in the presence of water have been investigated by the ONIOM model (14T/120T) with B3LYP/6-31g(d,p):UFF method. In the stepwise mechanism, the coadsorbed water assists the protonation of ethanol by the acidic zeolite proton to form an ethoxonium ion (CH3CH2OH2 + ). After that, the cation is dehydrated to form a surface ethoxide intermediate. The dehydration is found to be the rate-determining step with an activation barrier of 41.4 kcal/mol. The ethoxide is then deprotonated with a water molecule which results in the formation of the product of ethylene. The activation energy of the deprotonation is calculated to be 22.2 kcal/mol. The concerted mechanism differs in that the dehydration and the deprotonation occur simultaneously without the formation of the intermediate. In this mechanism, the activation barrier is higher at 54.7 kcal/mol. Therefore, we conclude that the stepwise mechanism should be the dominating one in hydrous ethanol dehydration.
Population structure and gene flow of the Atlantic walrus (Odobenus rosmarus rosmarus) in the eastern Atlantic Arctic based on mitochondrial DNA and microsatellite variation

The population structure of the Atlantic walrus, Odobenus rosmarus rosmarus, was studied using 11 polymorphic microsatellites and restriction fragment length polymorphism detected in the NADH‐dehydrogenase ND1, ND2 and ND3/4 segments in mtDNA. A total of 105 walrus samples were analysed from northwest (NW) Greenland, east (E) Greenland, Svalbard and Franz Joseph Land. Two of the 10 haplotypes detected in the four samples were diagnostic for the NW Greenland sample, which implied that the group of walruses in this area is evolutionary distinct from walruses in the other three areas. One individual sampled in E Greenland exhibited a Pacific haplotype, which proved a connection between the Pacific walrus and walruses in eastern Greenland. The Franz Joseph Land, Svalbard and E Greenland samples shared the most common haplotype, indicating very little differentiation at the mtDNA level. Gene flow (Nm) estimates among the four areas indicated a very restricted exchange of female genes between NW Greenland and the more eastern Atlantic Arctic samples, and a closer relationship between the three samples composing the eastern Atlantic Arctic. The genetic variation at 11 polymorphic microsatellite loci grouped individuals into three populations, NW Greenland, E Greenland and a common Franz Joseph Land–Svalbard population, which were connected by moderate gene flow.
Spectral Sensitivity of Simulated Photovoltaic Module Soiling for a Variety of Synthesized Soil Types

The accumulation of soil on photovoltaic (PV) modules may introduce a spectral loss due to the color profile of the accumulated material. In order to compare the spectral and total losses experienced by a cell, soil analogs were formulated to contain common mineral pigments (Fe2O3 and göthite) with previously developed “standard grime” mixtures. These mixtures simulated a wide range of desert soil colors and were applied to glass test coupons. The light transmission through the deposited film was evaluated by UV/vis/NIR spectroscopy and by placing the coupon over a test cell in a 1-sun simulator and quantum efficiency test stand. Distinct peaks in the 300-600-nm range were observed by UV/vis/NIR spectroscopy corresponding to the Fe2O3 and göthite. Approximately analogous features were noted in the QE measurement. Overall comparisons were made by integrating the response of a soiled coupon relative to a clean reference. Soils rich in red pigments (Fe2O3) caused a greater integrated response than soils rich in yellow pigment (göthite). The yellow soils caused a greater attenuation in a specific region of the spectrum (300-450 nm), which may have significant implications to specific devices, such as multijunction and CdTe technologies.
Near-Infrared Spectroscopy and Cortical Responses to Speech Production

This research demonstrates near-infrared spectroscopy (NIRS) as a flexible methodology for measuring cortical activity during overt speech production while avoiding some limitations of traditional imaging technologies. Specifically, language production research has been limited in the number of participants and the types of paradigms that can be reasonably investigated using functional magnetic resonance imaging (fMRI) – where a sensitivity to motion has encouraged covert (i.e., nonvocalized) production paradigms – and positron emission tomography (PET), which allows a greater range of motion but introduces practical and ethical limitations to the populations that can be studied. Moreover, for these traditional technologies, the equipment is expensive and not portable, effectively limiting most studies to small, local samples in a relatively few labs. In contrast, NIRS is a relatively inexpensive, portable, noninvasive alternative that is robust to motion artifacts associated with overt speech production. The current study shows that NIRS data is consistent with behavioral and traditional imaging data on cortical activation associated with overt speech production. Specifically, the NIRS data show robust activation in the left temporal region and no significant change in activation in the analogous right hemisphere region in a sample of native, English-speaking adults in a picture-naming task. These findings illustrate the utility of NIRS as a valid method for tracking cortical activity and advance it as a powerful alternative when traditional imaging techniques are not a viable option for researchers investigating the neural substrates supporting speech production.
Freeze Drying Improves the Shelf-Life of Conductive Polymer Modified Neural Electrodes

Coating microelectrodes with conductive polymer is widely recognized to decrease impedance and improve performance of implantable neural devices during recording and stimulation. A concern for wide-spread use of this approach is shelf-life, i.e., the electrochemical stability of the coated microelectrodes prior to use. In this work, we investigated the possibility of using the freeze-drying process in order to retain the native low impedance state and, thereby, improve the shelf-life of conductive polymer poly(3,4-ethylenedioxythiophene) (PEDOT)-PSS modified neural electrodes. Control PEDOT-PSS coated microelectrodes demonstrated a significant increase in impedance at 1 kHz after 41–50 days of room temperature storage. Based on equivalent circuit modeling derived from electrochemical impedance spectroscopy, this increase in impedance could be largely attributed to a decrease in the interfacial capacitance consistent with a collapse and closing of the porous structure of the polymeric coating. Time-dependent electrochemical impedance measurements revealed higher stability of the freeze-dried coated microelectrodes compared to the controls, such that impedance values after 41–50 days appeared to be indistinguishable from the initial levels. This suggests that freeze drying PEDOT-PSS coated microelectrodes correlates with enhanced electrochemical stability during shelf storage.
Catalysing Private Capital Flows: Do IMF Programmes Work as Commitment Devices?

In this article, we examine whether IMF programmes influence the ability of developing country issuers to tap international bond markets and if they improve spreads paid on the bonds issued. We find that Fund programmes do not provide a uniformly favourable signalling effect. Instead, the evidence is most consistent with a positive effect of IMF programmes when they are viewed as likely to lead to policy reform and when undertaken before economic fundamentals have deteriorated significantly. The size of the Fund's programme matters but the credibility of a joint commitment by the country and the IMF appears to be critical.
Comparison of a brush‐sampling fecal immunochemical test for hemoglobin with a sensitive guaiac‐based fecal occult blood test in detection of colorectal neoplasia

Fecal immunochemical tests (FIT) are an advanced fecal occult blood test (FOBT) technology that reduces barriers to population screening by simplifying the logistics of stool‐sampling. The current study was conducted to undertake a paired comparison of a sensitive guaiac FOBT (GFOBT; Hemoccult II Sensa, Beckman Coulter, Fullerton, CA) with a brush‐sampling FIT (InSure; Enterix, North Ryde, NSW, Australia), to determine whether this FIT improves detection of significant neoplasia.
Nonlinearly enhanced vortex induced vibrations for energy harvesting

In order to enhance the performance of an energy converter based on a vortex induced vibration (VIV) system, a model of nonlinear springs, the so-called hardening springs, is applied to widen the resonance range. A nonlinear spring is introduced by utilizing cantilever beams with additional plates to harden the structure partially. An experimental investigation is carried out to analyze the potential of hardening stiffness spring in widening the resonance range. A fluid-structure interaction (FSI) simulation is performed to validate the experimental results. A comparison to the experimental results from a similar system that utilized linear springs shows the potential of hardening springs in widening the resonance range of VIV energy converters.
Sequoia 2000: a reflection on the first three years

Sequoia 2000 addresses growing worldwide concern regarding changes to the Earth's surface, inhabitants, and atmosphere. The project is named for the Sierra Nevada's giant trees, the largest organisms on Earth, and is driven by our need to address the gigantic data requirements of global change research. Envisioning a new computer environment for Earth science researchers and encompassing networking, storage database management systems, and visualization activities, Sequoia 2000 has been under development for three years. A second three-year phase is planned. The article discusses the project, its implementation, its objectives, how we chose to address those objectives, and specific lessons learned from this endeavor. <<ETX>>
Amyloid Form of Ovalbumin Evokes Native Antigen-specific Immune Response in the Host

Background: Amyloids have recently been found to be reversible and dynamic. They release the precursor peptide/protein in a slow and sustained manner. Results: Antibodies produced in response to amyloid immunization could recognize native antigen. Conclusion: OVA amyloids release proteins harboring native antigen epitopes. Significance: The slow and sustained release of native antigen from amyloids makes them potential candidates for inducing a protective antibody response. Amyloids are highly organized protein aggregates that arise from inappropriately folded versions of proteins or polypeptides under both physiological as well as simulated ambiences. Once thought to be irreversible assemblies, amyloids have begun to expose their more dynamic and reversible attributes depending upon the intrinsic properties of the precursor protein/peptide and experimental conditions such as temperature, pressure, structural modifications in proteins, or presence of chemicals in the reaction mixture. It has been repeatedly proposed that amyloids undergo transformation to the bioactive peptide/protein forms under specific conditions. In the present study, amyloids assembled from the model protein ovalbumin (OVA) were found to release the precursor protein in a slow and steady manner over an extended time period. Interestingly, the released OVA from amyloid depot was found to exhibit biophysical characteristics of native protein and reacted with native-OVA specific monoclonal as well as polyclonal antibodies. Moreover, antibodies generated upon immunization of OVA amyloidal aggregates or fibrils were found to recognize the native form of OVA. The study suggests that amyloids may act as depots for the native form of the protein and therefore can be exploited as vaccine candidates, where slow antigen release over extended time periods is a pre-requisite for the development of desired immune response.