Miracle-dz/UniFAR-FTUs huggingface dataset:
Effect of culture temperature on erythropoietin production and glycosylation in a perfusion culture of recombinant CHO cells

To investigate the effect of culture temperature on erythropoietin (EPO) production and glycosylation in recombinant Chinese hamster ovary (CHO) cells, we cultivated CHO cells using a perfusion bioreactor. Cells were cultivated at 37°C until viable cell concentration reached 1 × 107 cells/mL, and then culture temperature was shifted to 25°C, 28°C, 30°C, 32°C, 37°C (control), respectively. Lowering culture temperature suppressed cell growth but was beneficial to maintain high cell viability for a longer period. In a control culture at 37°C, cell viability gradually decreased and fell below 80% on day 18 while it remained over 90% throughout the culture at low culture temperature. The cumulative EPO production and specific EPO productivity, qEPO, increased at low culture temperature and were the highest at 32°C and 30°C, respectively. Interestingly, the cumulative EPO production at culture temperature below 32°C was not as high as the cumulative EPO production at 32°C although the qEPO at culture temperature below 32°C was comparable or even higher than the qEPO at 32°C. This implies that the beneficial effect of lowering culture temperature below 32°C on qEPO is outweighed by its detrimental effect on the integral of viable cells. The glycosylation of EPO was evaluated by isoelectric focusing, normal phase HPLC and anion exchange chromatography analyses. The quality of EPO at 32°C in regard to acidic isoforms, antennary structures and sialylated N‐linked glycans was comparable to that at 37°C. However, at culture temperatures below 32°C, the proportions of acidic isoforms, tetra‐antennary structures and tetra‐sialylated N‐linked glycans were further reduced, suggesting that lowering culture temperature below 32°C negatively affect the quality of EPO. Thus, taken together, cell culture at 32°C turned out to be the most satisfactory since it showed the highest cumulative EPO production, and moreover, EPO quality at 32°C was not deteriorated as obtained at 37°C. Biotechnol. Bioeng. 2008;101: 1234–1244. © 2008 Wiley Periodicals, Inc.
Molecular mechanisms of endothelial hyperpermeability: implications in inflammation

Endothelial hyperpermeability is a significant problem in vascular inflammation associated with trauma, ischaemia–reperfusion injury, sepsis, adult respiratory distress syndrome, diabetes, thrombosis and cancer. An important mechanism underlying this process is increased paracellular leakage of plasma fluid and protein. Inflammatory stimuli such as histamine, thrombin, vascular endothelial growth factor and activated neutrophils can cause dissociation of cell–cell junctions between endothelial cells as well as cytoskeleton contraction, leading to a widened intercellular space that facilitates transendothelial flux. Such structural changes initiate with agonist–receptor binding, followed by activation of intracellular signalling molecules including calcium, protein kinase C, tyrosine kinases, myosin light chain kinase, and small Rho-GTPases; these kinases and GTPases then phosphorylate or alter the conformation of different subcellular components that control cell–cell adhesion, resulting in paracellular hypermeability. Targeting key signalling molecules that mediate endothelial-junction–cytoskeleton dissociation demonstrates a therapeutic potential to improve vascular barrier function during inflammatory injury.
Mammalian Atg18 (WIPI2) localizes to omegasome-anchored phagophores and positively regulates LC3 lipidation

Autophagosome formation is a complex process that begins with the nucleation of a pre-autophagosomal structure (PAS) that expands into a phagophore or isolation membrane, the precursor of the autophagosome. A key event in the formation of the phagophore is the production of PtdIns3P by the phosphatidylinsitol kinase Vps34. In yeast the two closely related proteins, Atg18 and Atg21, are the only known effectors of PtdIns3P that act in the autophagy pathway. The recruitment of Atg18 or Atg21 to the PAS is an essential step in the formation of the phagophore. Our bioinformatic analysis of the Atg18 and Atg21 orthologues in all eukaryotes shows that WIPI1 and WIPI2 are both mammalian orthologues of Atg18. We show that WIPI2 is a mammalian effector of PtdIns3P and is ubiquitously expressed in a variety of cell lines. WIPI2 is recruited to early autophagosomal structures along with Atg16L and ULK1 and is required for the formation of LC3-positive autophagosomes. Furthermore, when WIPI2 is depleted, we observe a remarkable accumulation of omegasomes, ER-localized PtdIns3P-containing structures labeled by DFCP1 (double FYVE domain-containing protein 1), which are thought to act as platforms for autophagosome formation. In view of our data we propose a role for WIPI2 in the progression of omegasomes into autophagosomes.
Isolation, identification, and hexon gene characterization of fowl adenoviruses from a contaminated live Newcastle disease virus vaccine

&NA; To investigate the possible causes of the massive spread of fowl adenovirus (FAdV) infection among chickens in recent years in China, 32 batches of live‐virus vaccines were tested for contamination with FAdV by PCR. Among these, 1 live Newcastle disease virus (NDV) vaccine of the LaSota strain was demonstrated to be positive for contamination. The amplified hexon gene exhibited 99.8% identity with a recent Chinese field isolate (JSJ13) of FAdV‐4. The positive LaSota vaccine was first neutralized with anti‐NDV serum and then inoculated into specific pathogen‐free embryos at embryonic day 5 through the yolk sac for isolation of the contaminated FAdV. The same hexon gene bands were amplified from extracted DNA of the liver tissues and chicken embryo allantoic fluid of the inoculated embryos, indicating the replication and isolation of the FAdV‐4 virus strain that had contaminated the vaccine. This represents the first report of FAdV‐4 contamination in a live vaccine for poultry in China. These findings suggest that contamination of live vaccine might represent one of the most important causes of massive outbreaks of FAdV infection among chickens and indicate that FAdV should therefore be included in the regular monitoring list for the detection of exogenous viral contamination of attenuated vaccines for poultry.
Improving the fermentation quality of wheat straw silage stored at low temperature by psychrotrophic lactic acid bacteria.

This study aimed to explore the feasible approaches to develop a silage production technique in regions with low temperatures. An effective low-temperature silage technology system was constructed and two frigostable Lactobacillus (L.) strains isolated from alpine pastures were selected and proved to be available for wheat straw silage at 5°C. The strains QZ227 and QZ887 were both identified as L. plantarum according to the phenotype, 16S rRNA, and RecA gene analysis. QZ227, QZ887 and a commercial inoculant FG1 consisting of L. plantarum were effective for improving the fermentation quality of wheat straws silage at 5°C for 30 days as indicated by the higher content of lactic acid and for 60 days by lower pH values, while the control with sterile water instead conferred reduced benefits. Additionally, silages fermented at low temperature proved to be acceptable for feeding livestock after being placed in a simulated environmental temperature of 20°C for 14 days to detect its edibility during the early spring when the temperature begins to rise. Both QZ227 and QZ887 showed potential applications of silage making in frigid areas and were effective inoculants in a low-temperature silage technology system.
The Yeast C-Type Cyclin Ctk2p Is Phosphorylated and Rapidly Degraded by the Ubiquitin-Proteasome Pathway

ABSTRACT The yeast CTDK-I complex has been implicated in phosphorylation of the carboxy-terminal domain of the RNA polymerase II and in transcription control. It is composed of three polypeptides: Ctk1p and Ctk2p, a cyclin-dependent kinase and a C-type cyclin subunit, respectively; and Ctk3p, a third subunit of unknown function. Cyclins are regulatory proteins whose expression is tightly controlled at the protein level. In this study, we examined the regulation of Ctk2p expression in vivo. Surprisingly, unlike what has been described for cell cycle cyclins, steady-state levels of Ctk2p are composed of two relatively abundant forms, one of them phosphorylated. We show that this phosphorylated form is extremely unstable (half-life, 5 min) and that rapid proteolysis of Ctk2p exhibits growth-related regulation. Furthermore, our data establish that similar to the case for other naturally short-lived proteins, Ctk2p degradation is mediated by the ubiquitin-proteasome pathway. This is the first demonstration that a C-type cyclin is phosphorylated and targeted to the proteasome. Strikingly, neither phosphorylation nor destruction of Ctk2p requires its associated kinase Ctk1p, a feature fundamentally different from that which has been observed for cell cycle cyclins.
Physical activity–related social control and social support in older adults: Cognitive and emotional pathways to physical activity

A survey of 217 older adults assessed physical activity–related positive and negative social control and emotional and informational support, using structural equation modeling to investigate mediational effects of emotional responses and behavioral intentions on physical activity. There were significant indirect effects of social control and social support on intentions as mediated by positive, but not negative, emotional responses, and significant indirect effects of emotional responses on physical activity as mediated by intentions. These findings help to identify the cognitive and emotional pathways by which social control and social support may promote or detract from physical activity in later life.
The relationship between the levels of nurses' competence and the length of their clinical experience: a tentative model for nursing competence development.

AIMS AND OBJECTIVES To explore the relationship between the levels of nurses' competence and the length of their clinical experience, in order to provide a tentative model of the continuing competence of nurses. BACKGROUND The professional development of employees has attracted great interest. This interest has led to the development of various models that illustrate how employees develop their competence throughout their careers. However, little is known of how nurses maintain and develop their competence throughout their career pathways. DESIGN A cross-sectional design was used. METHODS Using a survey method, five dimensions of self-assessed nursing competence and the length of the nurses' clinical practice were measured (n = 325). Each dimension of competence was plotted against the length of their clinical experience using locally weighted scatterplot smoothing. Then, the shapes of the plots were analysed by fractional polynomial regression analysis. RESULTS Overall, the relationships between the levels of nursing competence and the length of clinical experience were illustrated by curves with a rapid increase in competence levels at the early stage of the nursing career and a slower increase later. These curves were modelled by either a logarithmic, square-root function or its reciprocal. The results supported the learning curve model. CONCLUSIONS The competence development of nurses may be characterised by two distinctive periods: a rapid growth period followed by stable periods. However, the modality of the growth may be different depending on which dimension of nursing competence is in focus. RELEVANCE TO CLINICAL PRACTICE The level of nursing competence directly affects the quality of care provided to patients. The findings of the study enable healthcare organisations to take proactive approaches to enhance nurses' competence by identifying when and how to assist nurses.
An Exact Expression for Photon Polarization in Kerr Geometry

We analyze the transformation of the polarization of a photon propagating along an arbitrary null geodesic in Kerr geometry. The motivation comes from the problem of an observer trying to communicate quantum information to another observer in Kerr spacetime by transmitting polarized photons. It is essential that the observers understand the relationship between their frames of reference and also know how the photon's polarization transforms as it travels through Kerr spacetime. Existing methods to calculate the rotation of the photon polarization (Faraday rotation) depend on choices of coordinate systems, are algebraically complex and yield results only in the weak-field limit. We give a closed-form expression for a parallel propagated frame along an arbitrary null geodesic using Killing-Yano theory, and thereby solve the problem of parallel transport of the polarization vector in an intrinsic, geometrically-motivated fashion. The symmetries of Kerr geometry are utilized to obtain a remarkably compact expression for the geometrically induced phase of the photon's polarization. We show that this phase vanishes on the equatorial plane and the axis of symmetry.
Measuring range and bearing with a binaural ultrasonic sensor

Discusses the development of a binaural ultrasonic sensor for mobile robot navigation, which is capable of measuring the range and bearing angle to multiple targets. A novel aspect of the design of the sensor is that it calculates the bearing angle twice, using inter-aural time difference (ITD) and inter-aural amplitude difference (IAD). These calculations of bearing are independent of atmospheric fluctuations and the geometry of the reflecting object. These independent bearing calculations are used to solve the correspondence problem. Echo pairs whose bearings differ by more than an acceptable amount are discarded.
PIXIDA: Optimizing Data Parallel Jobs in Wide-Area Data Analytics

In the era of global-scale services, big data analytical queries are often required to process datasets that span multiple data centers (DCs). In this setting, cross-DC bandwidth is often the scarcest, most volatile, and/or most expensive resource. However, current widely deployed big data analytics frameworks make no attempt to minimize the traffic traversing these links. In this paper, we present Pixida, a scheduler that aims to minimize data movement across resource constrained links. To achieve this, we introduce a new abstraction called Silo, which is key to modeling Pixida's scheduling goals as a graph partitioning problem. Furthermore, we show that existing graph partitioning problem formulations do not map to how big data jobs work, causing their solutions to miss opportunities for avoiding data movement. To address this, we formulate a new graph partitioning problem and propose a novel algorithm to solve it. We integrated Pixida in Spark and our experiments show that, when compared to existing schedulers, Pixida achieves a significant traffic reduction of up to ~ 9x on the aforementioned links.
Biocide tolerance in Salmonella from meats in Southern Spain

Salmonella serovars sampled from meat products in Southern Spain (Andalucía) during the period 2002-2007 were analyzed in this study. The serovars most frequently detected (in order) were Typhimurium, Enteritidis, Derby, Anatum and Rissen. Isolates (n = 43) were tested for sensitivity to biocides, including the quaternary ammonium compounds benzalkonium chloride (BC), cetrimide (CT) and hexadecylpyridinium chloride (HDP), and the bisphenols triclosan (TC) and hexachlorophene (CF). The minimum inhibitory concentration (MIC) for the quaternary ammonium compounds was in the range of 25 to 50 mg/L for most isolates, although a few isolates required much higher concentrations, up to 250 mg/L. Bisphenols showed higher inhibitory activity, with a MIC of 2.5 to 25 mg/L. A few isolates showed a “non-wildtype” MIC for TC of up to 250 mg/L. These results indicate a low incidence of tolerance towards quaternary ammonium compounds and triclosan among Salmonella from meats and meat products.
Male–killing Wolbachia in two species of insect

The inherited bacterium Wolbachia spreads through the manipulation of host reproduction, and has been suggested to be an important factor in arthropod evolution, from host speciation to the evolution of sex–determination systems. Past work has shown that members of this group may produce cytoplasmic incompatibility, feminize genetically male hosts, and induce host parthenogenesis. Here, we report an expansion of the range of reproductive manipulations produced by members of this clade, recording Wolbachia strains that kill male hosts during embryogenesis in two host species, the ladybird Adalia bipunctata, and the butterfly Acraea encedon. Both male–killing bacteria belong to the B group of Wolbachia. However, phylogenetic analyses were unable to resolve whether the bacteria in the two species are monophyletic, or represent independent origins of male–killing among the B–group Wolbachia. We also found significant divergence within the wsp gene of Wolbachia strains found in different A. bipunctata individuals, suggesting this host species contains two Wolbachia strains, diverged in wsp sequence but monophyletic. Our observations reinforce the notion that Wolbachia may be an important agent driving arthropod evolution, and corroborates previous suggestions that male–killing behaviour is easily evolved by invertebrate symbionts.
Benchmarking yeast two‐hybrid systems using the interactions of bacterial motility proteins

Yeast two‐hybrid screens often produce vastly non‐overlapping interaction data when the screens are conducted in different laboratories, or use different vectors, strains, or reporter genes. Here we investigate the underlying reasons for such inconsistencies and compare the effect of seven different vectors and their yeast two‐hybrid interactions. Genome‐wide array screens with 49 motility‐related baits from Treponema pallidum yielded 77 and 165 interactions with bait vectors pLP‐GBKT7 and pAS1‐LP, respectively, including 21 overlapping interactions. In addition, 90 motility‐related proteins from Escherichia coli were tested in all pairwise combinations and yielded 140 interactions when tested with pGBKT7g/pGADT7g vectors but only 47 when tested with pDEST32/pDEST22. We discuss the factors that determine these effects, including copy number, the nature of the fusion protein, and species‐specific differences that explain non‐conserved interactions among species. The pDEST22/pDEST32 vectors produce a higher fraction of interactions that are conserved and that are biologically relevant when compared with the pGBKT7/pGADT7‐related vectors, but the latter appear to be more sensitive and thus detect more interactions overall.
Virtual reality for gait training: can it induce motor learning to enhance complex walking and reduce fall risk in patients with Parkinson's disease?

BACKGROUND Gait and cognitive disturbances are common in Parkinson's disease (PD). These deficits exacerbate fall risk and difficulties with mobility, especially during complex or dual-task walking. Traditional gait training generally fails to fully address these complex gait activities. Virtual reality (VR) incorporates principles of motor learning while delivering engaging and challenging training in complex environments. We hypothesized that VR may be applied to address the multifaceted deficits associated with fall risk in PD. METHODS Twenty patients received 18 sessions (3 per week) of progressive intensive treadmill training with virtual obstacles (TT + VR). Outcome measures included gait under usual-walking and dual-task conditions and while negotiating physical obstacles. Cognitive function and functional performance were also assessed. RESULTS Patients were 67.1 ± 6.5 years and had a mean disease duration of 9.8 ± 5.6 years. Posttraining, gait speed significantly improved during usual walking, during dual task, and while negotiating overground obstacles. Dual-task gait variability decreased (ie, improved) and Trail Making Test times (parts A and B) improved. Gains in functional performance measures and retention effects, 1 month later, were also observed. CONCLUSIONS To our knowledge, this is the first time that TT + VR has been used for gait training in PD. The results indicate that TT + VR is viable in PD and may significantly improve physical performance, gait during complex challenging conditions, and even certain aspects of cognitive function. These findings have important implications for understanding motor learning in the presence of PD and for treating fall risk in PD, aging, and others who share a heightened risk of falls.
Protective Effects of Parent–College Student Communication During the First Semester of College

Abstract Objective: Recent studies suggest that parents maintain influence as their adolescents transition into college. Advances in communication technology make frequent communication between parents and college students easy and affordable. This study examines the protective effect of parent–college student communication on student drinking behaviors, estimated peak blood alcohol concentration (eBAC), and serious negative consequences of drinking. Participants: Participants were 746 first-year, first-time, full-time students at a large university in the United States Methods: Participants completed a baseline and 14 daily Web-based surveys. Results: The amount of time spent communicating with parents on weekend days predicted the number of drinks consumed, heavy drinking, and peak eBAC, consistent with a protective within-person effect. No association between communication and serious negative consequences was observed. Conclusions: Encouraging parents to communicate with their college students, particularly on weekend days, could be a relatively simple, easily implemented protective process to reduce dangerous drinking behaviors.
On-Line Processing of Uncertain Information in Visuomotor Control

Our sensory observations represent a delayed, noisy estimate of the environment. Delay causes instability and noise causes uncertainty. To deal with these problems, theory suggests that the processing of sensory information by the brain should be probabilistic: to start a movement or to alter it midflight, our brain should make predictions about the near future of sensory states and then continuously integrate the delayed sensory measures with predictions to form an estimate of the current state. To test the predictions of this theory, we asked participants to reach to the center of a blurry target. With increased uncertainty about the target, reach reaction times increased. Occasionally, we changed the position of the target or its blurriness during the reach. We found that the motor response to a given second target was influenced by the uncertainty about the first target. The specific trajectories of motor responses were consistent with predictions of a “minimum variance” state estimator. That is, the motor output that the brain programmed to start a reaching movement or correct it midflight was a continuous combination of two streams of information: a stream that predicted the near future of the state of the environment and a stream that provided a delayed measurement of that state.
Puppeteer: component-based adaptation for mobile computing (Poster Session)

A method is provided for inspecting defects in the surface of an object to be inspected, wherein oblique lighting and perpendicular lighting are alternately applied to a location where a defect or a foreign substance possibly exists. Brightness detected in the location under the application of oblique lighting is evaluated as a foreign substance so as to be discriminated from a defect. Defects are classified through shape recognition of a defect pattern obtained under the application of perpendicular lighting.