Miracle-dz/UniFAR-FTUs huggingface dataset:
Identification and characterization of two Alcaligenes eutrophus gene loci relevant to the poly(beta-hydroxybutyric acid)-leaky phenotype which exhibit homology to ptsH and ptsI of Escherichia coli

From genomic libraries of Alcaligenes eutrophus H16 in lambda L47 and in pVK100, we cloned DNA fragments which restored the wild-type phenotype to poly(beta-hydroxybutyric acid) (PHB)-leaky mutants derived from strains H16 and JMP222. The nucleotide sequence analysis of a 4.5-kb region of one of these fragments revealed two adjacent open reading frames (ORF) which are relevant for the expression of the PHB-leaky phenotype. The 1,799-bp ORF1 represented a gene which was referred to as phbI. The amino acid sequence of the putative protein I (Mr, 65,167), which was deduced from phbI, exhibited 38.9% identity with the primary structure of enzyme I of the Escherichia coli phosphoenolpyruvate:carbohydrate phosphotransferase system (PEP-PTS). The upstream 579-bp ORF2 was separated by 50 bp from ORF1. It included the 270-bp phbH gene which encoded protein H (Mr, 9,469). This protein exhibited 34.9% identity to the HPr protein of the E. coli PEP-PTS. Insertions of Tn5 in different PHB-leaky mutants were mapped at eight different positions in phbI and at one position in phbH. Mutants defective in phbH or phbI exhibited no pleiotropic effects and were not altered with respect to the utilization of fructose. However, PHB was degraded at a higher rate in the stationary growth phase. The functions of these HPr- and enzyme I-like proteins in the metabolism of PHB are still unknown. Evidence for the involvement of these proteins in regulation of the metabolism of intracellular PHB was obtained, and a hypothetical model is proposed.
Confirmational Identification of Escherichia coli, a Comparison of Genotypic and Phenotypic Assays for Glutamate Decarboxylase and β-d-Glucuronidase

Genotypic and phenotypic assays for glutamate decarboxylase (GAD) and beta-D-glucuronidase (GUD) were compared for their abilities to detect various strains of Escherichia coli and to discriminate among other bacterial species. Test strains included nonpathogenic E. coli, three major groups of diarrheagenic E. coli, three other non-coli Escherichia species, and various other gram-negative and -positive bacteria found in water. The genotypic assays were performed with hybridization probes generated by PCR amplification of 670- and 623-bp segments of the gadA/B (GAD) and uidA (GUD) genes, respectively. The GAD enzymes catalyze the alpha-decarboxylation of L-glutamic acid to yield gamma-aminobutyric acid and carbon dioxide, which are detected in the phenotypic assay by a pH-sensitive indicator dye. The phenotypic assay for GUD involves the transformation of 4-methylumbelliferyl-beta-D-glucuronide to the fluorogenic compound 4-methylumbelliferone. The GAD phenotypic assay detected the majority of the E. coli strains tested, whereas a number of these strains, including all representatives of the O157:H7 serotype and several nonpathogenic E. coli strains, gave negative results in the GUD assay. Both phenotypic assays detected some but not all strains from each of the four Shigella species. A strain of Citrobacter freundii was also detected by the GUD assay but not by the GAD assay. All E. coli and Shigella strains were detected with both the gadA/B and uidA probes. A few Escherichia fergusonii strains gave weak hybridization signals in response to both probes at 65 degrees C but not at 68 degrees C. None of the other bacterial species tested were detected by either probe. These results were consistent with previous reports which have indicated that the GAD phenotypic assay detects a wider range of E. coli strains than does the GUD assay and is also somewhat more specific for this species. The genotypic assays for the two enzymes were found to be equivalent in both of these respects and superior to both of the phenotypic assays in terms of the range of E. coli strains and isolates detected.
Non-Cooperative Spectrum Access - The Dedicated vs. Free Spectrum Choice

We consider a dynamic spectrum access system in which Secondary Users (SUs) choose to either acquire dedicated spectrum or to use spectrum-holes (white spaces) which belong to Primary Users (PUs). The trade-off incorporated in this decision is between immediate yet costly transmission and free but delayed transmission (a consequence of both the possible appearance of PUs and sharing the spectrum holes with multiple SUs). We first consider a system with a single PU band, in which the SU decisions are fixed. Employing queueing-theoretic methods, we obtain explicit expressions for the expected delays associated with using the PU band. Based on that, we then consider self-interested SUs and study the interaction between them as a non-cooperative game. We prove the existence and uniqueness of a symmetric Nash equilibrium, and characterize the equilibrium behavior explicitly. Using our equilibrium results, we show how to maximize revenue from renting dedicated bands to SUs and briefly discuss the extension of our model to multiple PUs. Finally, since spectrum sensing can be resource-consuming, we characterize the gains provided by this capability.
Growth phase and ompR regulation of transcription of microcin B17 genes

The synthesis of the peptide antibiotic microcin B17 was shown to occur as the cells entered the stationary phase of growth. This type of growth phase regulation is commonly observed in the production of a number of different bacterial products such as toxins and antibiotics. Microcin B17 synthesis is also dependent on the product of the ompR gene. To determine the role of transcription in this double regulation of microcin B17 production, operon fusions with Mu d1 (Ap lac) were constructed. Insertions were obtained in all four plasmid genes involved in production of microcin B17 (mcbA-D) and in the immunity region. Three classes of fusions were obtained. Fusions into mcbA, mcbB, and mcbC (first class) exhibited an increase in their transcription as the cells approached the stationary phase. These increases as well as basal levels of transcription were dependent on OmpR. Expression of fusions in mcbD and in the immunity region (second class) was also dependent on OmpR, but their expression remained constant throughout growth. One fusion in mcbC (third class) was obtained which was transcribed in the opposite direction than the others. It showed no growth phase regulation and no OmpR dependence. The implications of these results in terms of the transcriptional organization of the mbc genes are discussed.
The relationship between blood urea nitrogen levels and metabolic, biochemical, and histopathologic findings of nondiabetic, nonhypertensive patients with nonalcoholic fatty liver disease.

BACKGROUND/AIM Nonalcoholic fatty liver disease (NAFLD) is known as the most common cause of chronic liver disease. It is accepted that the leading cause of death in patients with NAFLD is from coronary events. Blood urea nitrogen (BUN) was used as a prognostic indicator for cardiovascular disease. We aimed to investigate the relationship between BUN levels and metabolic, biochemical, and histopathologic findings of nondiabetic patients with NAFLD. MATERIALS AND METHODS A total of 195 male patients with biopsy proven NAFLD and 82 healthy controls with normal liver and renal function tests and normal abdominal ultrasonography were enrolled in the study. BUN levels were reviewed retrospectively. RESULTS The mean BUN levels of patients and controls were 13.07 (11.3-15.41) and 13.31 (10.97-15.87) mg/dL respectively. Patients were grouped as simple steatosis (n = 33, 16.9%), borderline nonalcoholic steatohepatitis (n = 64, 32.8%), and nonalcoholic steatohepatitis (n = 98, 50.3%), and the BUN levels of the histologic subgroups were 13.14 ± 2.89, 14.34 ± 3.04, and 13.71 ± 3.21 mg/dL, respectively. We could not find any differences between the patient group and control group with respect to BUN levels. CONCLUSION Our findings showed that there was no relationship between BUN levels and metabolic, biochemical, and histopathologic findings of patients with NAFLD. Further investigations, including in patients with late stages of NAFLD, are required.
ARES: An autonomic and resilient framework for smart grids

In smart grids, the broad use of Distributed Energy Resources (DERs) in distribution networks introduces the need for protective relaying schemes similar to those used in high-voltage networks. The introduction of intermittent DERs, as solar panels, also requires more autonomic and dynamic SCADA networks. Hence, power systems experience an increased demand for resilience in the distribution communication network. However, resilience methods currently in use still cannot meet those protection requirements. This work proposes ARES, a framework for autonomic and resilient communication for smart grids. ARES provides resilient, robust, and flexible communication for smart grids with Software Defined Network (SDN). Our proposal also provides autonomic services for SCADA that can improve smart grid application performance and efficiency. ARES fault resilience module is implemented and tested using Mininet 2.2. 1 and RYU controller and presents maximum recovery time of 610 microseconds, which is an important advance compared to other proposals. In addition, ARES is transparent to end devices, keeping compatibility with legacy measurement and actuation devices.
The role of magnetic resonance imaging in the prenatal diagnosis of cleft lip and palate.

INTRODUCTION Cleft lip and/or palate is the most common congenital craniofacial anomaly. Ultrasonography plays a key role in the early diagnosis of this anomaly and is completed by MRI. The purpose of this paper is to present and summarize the experience in diagnosis of cleft lip/palate by means of MRI. MATERIAL AND METHODS The material consists of 62 fetuses that required more detailed evaluation which was conducted with the use of a 1.5 T scanner in SSFSE/T2 sequence in the sagittal, transverse and coronal plane. RESULTS The cleft was diagnosed in 15 fetuses: an isolated cleft lip in one case (6.7%), a cleft lip and alveolar process in 2 (13.3%), a cleft lip and palate in 12 (80%). In eight fetuses (53.3%) the defect was unilateral, in 6 (40%) on both sides, in one case (6.7%) - a bilateral cleft lip and unilateral cleft palate was diagnosed. In three cases (20%), the cleft lip and/or palate defect was isolated, in 12 (80%) - it coexisted with other fetal abnormalities. MRI was less useful than ultrasound in 1 case (6.7%), in 4 cases (26.7%) it did not add any significant new information, in the remaining 10 cases (66.6%) important additional information was obtained on MRI. MRI revealed more details of the cleft in 5 cases (33.3%). In 10 fetuses (66.7%), cleft diagnosis was based on ultrasound and MRI only confirmed it. In 47 cases MRI allowed to show normal fetal faces, while there were difficulties of visualisation on ultrasound. CONCLUSIONS Prenatal MRI is a method supporting fetal ultrasound and is used to confirm/expand sonographic diagnosis, but can also change it. In the case of cleft lip and palate fetal MRI produces a better picture of the connections between the cavities, the degree of involvement of the secondary palate and cleft extent, and also helps to detect/assess other associated fetal abnormalities.
Prevalence of multidrug-resistant tuberculosis among newly diagnosed cases of sputum-positive pulmonary tuberculosis

Background & objectives: The prevalence of multidrug-resistant tuberculosis (MDR-TB) is increasing throughout the world. Although previous treatment for TB is the most important risk factor for development of MDR-TB, treatment-naïve patients are also at risk due to either spontaneous mutations or transmission of drug-resistant strains. We sought to ascertain the prevalence of MDR-TB among new cases of sputum-positive pulmonary TB. Methods: This was a prospective, observational study involving newly diagnosed cases of sputum-positive pulmonary tuberculosis diagnosed between 2008 and 2009 carried out in New Delhi, India. All sputum-positive TB cases were subjected to mycobacterial culture and first-line drug-susceptibility testing (DST). MDR-TB was defined as TB caused by bacilli showing resistance to at least isoniazid and rifampicin. Results: A total of 218 cases of sputum-positive pulmonary tuberculosis were enrolled between 2008 and 2009. Of these, 41 cases had negative mycobacterial cultures and DST was carried out in 177 cases. The mean age of the patients was 27.8 ± 10.2 yr; 59 patients (27%) were female. All patients tested negative for HIV infection. Out of 177 cases, two cases of MDR-TB were detected. Thus, the prevalence of MDR-TB among newly diagnosed pulmonary tuberculosis patients was 1.1 per cent. Interpretation & conclusions: MDR-TB prevalence is low among new cases of sputum-positive pulmonary TB treated at primary care level in Delhi. Nation-wide and State-wide representative data on prevalence of MDR-TB are lacking. Efforts should be directed towards continued surveillance for MDR-TB among newly diagnosed TB cases.
Impact of co-channel interference on the performance of adaptive non-ideal generalized transmit diversity

The impact of co-channel interference and non-ideal estimation of the desired user channel state information (CSI) on the performance of an adaptive threshold-based generalized transmit diversity for low-complexity multiple-input single-output configuration is investigated. The adaptation to channel conditions is assumed to be based on the desired user CSI, and the number of active transmit antennas is adjusted accordingly to guarantee predetermined target performance. To facilitate comparisons between different adaptation schemes, new analytical results for the statistics of combined signal-to-interference-plus-noise ratio (SINR) are derived, which can be applied for different fading conditions of interfering signals. Selected numerical results are presented to validate the analytical development and to compare the outage performance of the considered adaptation schemes.
A Theoretical Study on Special Ti:LiNbO $_{3}$ Structure of an Array of Strip Waveguides Embedded in a Planar Waveguide

A theoretical study was performed on waveguiding characteristics of a special Ti:LiNbO3 structure that an array of strip waveguides is embedded in a planar waveguide. First, a special Ti:LiNbO3 structure was fabricated by diffusion of homogeneously coated Ti film at first and then photolithographically patterned Ti-strips with different widths of 4, 5, 6, 7, and 8 μ m, and the transverse magnetic (TM) mode guided in the strip waveguides of the special structure was characterized by near-field measurements. Second, a 2-D refractive index profile is supposed for the special structure. Third, based upon this supposed index profile model and the experimentally determined mode field profile type, the mode sizes of the strip waveguides were calculated using variational method and compared with the experimental results to verify the validity of the index model supposed and the numerical method adopted. Finally, the mode sizes and effective indexes of several lowest order TM modes guided in the strip waveguides were calculated as a function of the initial Ti-strip width for different waveguide parameters that include the surface index increment and depth (width) of both the planar and strip waveguides. The numerical results show that the field profile in the width direction is influenced by many factors such as the initial Ti-strip width, waveguide width and depth, and the surface index increment of the strip waveguide. Instead, the mode field in the depth direction is only influenced by three factors that include the depth of strip waveguide and the surface index increments of both planar and strip waveguides. The single-mode condition depends on all of these parameters.
Brief motivational and parent interventions for college students: a randomized factorial study.

OBJECTIVE Using a randomized factorial design, we examined the efficacy of a brief motivational intervention (BMI) and a parent-based intervention (PBI) as universal preventive interventions to reduce alcohol use among incoming college students. METHOD Participants (N = 1,014) were assessed prior to matriculation and at 10 months and 22 months postbaseline. Two-part latent growth modeling was used to simultaneously examine initiation and growth in heavy episodic drinking and alcohol-related consequences. RESULTS This study retained 90.8% (n = 921) of randomized students at the 10-month follow-up and 84.0% (n = 852) of randomized students at the 22-month follow-up. BMI participants were significantly less likely than non-BMI participants to initiate heavy episodic drinking and to begin experiencing alcohol-related consequences. Effect sizes were minimal at 10 months (Cohen's h ranged from 0.02 to 0.07) and were small at 22 months (hs ranged from 0.15 to 0.22). A significant BMI x PBI interaction revealed that students receiving both the BMI and the PBI were significantly less likely to report the onset of consequences beyond the sum of the individual intervention effects (h = 0.08 at 10 months, and h = 0.21 at 22 months). Hypothesized direct BMI effects for reductions in heavy episodic drinking and consequences were not observed. Significant mediated effects via changes in descriptive norms were present for both growth and initiation of heavy episodic drinking and consequences. CONCLUSIONS To our knowledge, the current study is the first to provide support for BMI as a universal preventive intervention for incoming college students. Although hypothesized PBI main effects were not found, mediation analyses suggest future refinements could enhance PBI effectiveness.
Settler Colonialism, Indigenous Peoples and Food: Federal Indian policies and nutrition programs in the Canadian North since 1945

Abstract:This article looks at settler colonialism and the manufacturing of food insecurity in Indigenous communities located in present-day northern Canada after 1945. The federal government undermined the foodways of Indigenous peoples and sought to make them reliant on a southern market based food economy through the criminalization of Indigenous hunting and harvesting practices and the imposition of government programs like Family Allowance, Foodmail, and Nutrition North Canada. Examining how these events and policies worked together shows how food serves as a regulatory project of assimilation and governance whereby Indigenous peoples are seemingly ‘encouraged’ to adopt European-Canadian foodways.
A passband-corrected high rejection channel-select micromechanical disk filter

The introduction of a 39nm-gap capacitive transducer, voltage-controlled frequency tuning, and a stress relieving coupled array design has enabled a 0.09% bandwidth 223.4-MHz channel-select filter with only 2.7dB of in-band insertion loss and 50dB of out-of-channel interferer rejection. This amount of rejection is more than 23dB better than a previous capacitive-gap transduced filter design that did not benefit from sub-50nm gaps. It also comes in tandem with a 20dB shape factor of 2.7 realized by a hierarchical mechanical circuit design utilizing 206 resonant micromechanical circuit elements, all contained in an area footprint (sans bond pads) of only 600μm×420μm. The key to such low insertion loss for this tiny percent bandwidth is Q's >8,800 supplied by polysilicon disk resonators employing for the first time capacitive transducer gaps small enough to generate coupling strengths on the order of (Cx /Co) ~0.1%, which is a 6.1× improvement over previous efforts. Defensive strategies built into the array-composite design hierarchy counter process variations via electrical stiffness tuning, and alleviate stress by allocating displacement-buffer devices to increase filter performance and yield. This filter is the first demonstrated that truly offers low insertion loss and high rejection channel-selection for ultra-low power communication front-ends targeted for autonomous sensor networks.
Control and optimization strategies for interleaved dc-dc converters for EV battery charging applications

This paper deals with the optimization of the components of a multiphase interleaved operated buck converter for battery charging applications and proposes two control strategies. The proposed control strategies allow the number of active phases and the switching frequency to be adapted according to the output power, enabling a significant increase to the power handling capability without increasing the size of the power semiconductor. This can be further exploited to decrease the size of the semiconductor and the cooling system for a given power. In addition, the partial load efficiency of the converter is increased significantly. Finally an experimental validation is presented.
Posttraumatic stress disorder and depression in soldiers with combat experiences.

AIM To compare psychological, medical, and trauma-related variables in veterans with combat-related post-traumatic stress disorder (CR-PTSD) comorbid with depression and veterans with CR-PTSD only. METHOD Out of 402 Croatian veterans recruited during expert evaluation for war-related compensation claims, 346 met the criteria for CR-PTSD: 97 for CR-PTSD only and 249 for PTSD comorbid with other diagnoses (77 comorbid with depression). To reach diagnosis, psychiatrists used clinical interview based on DSM-IV criteria, interview with family and friends, previous medical documentation, and Hamilton Rating Scales for Depression and Anxiety. An independent psychologist used a structured psychological interview, Mississippi CR-PTSD scale, Watson's PTSD criteria, Minnesota Multiphasic Personality Inventory-version 201, and trauma questionnaire based on the Harvard Questionnaire. RESULTS Out of 402 soldiers, 13.9% did not meet the criteria for PTSD or other psychiatric diagnosis, 61.9% met the criteria for comorbid diagnoses, and 24.2% for PTSD only. The PTSD group with depression did not differ from PTSD-only group in combat experience, number of traumatic events, age, length of employment, sick leave, education, or marital status (chi-square test, p = 0.121-0.672). The two groups differed in pre-trauma factors, such as mental disturbances before combat experiences (p = 0.003), positive family history of psychiatric illness (p = 0.008), primary major depression (p = 0.012), and the number of hospital admissions (p = 0.002). CONCLUSION Different assessment methods in expert examination of combat-experienced soldiers with PTSD for compensation-related purposes are needed to establish the final diagnosis and avoid possibility of factitious disorder or malingering. Combat ability assessment should include assessment of previous psychiatric disturbances of soldiers and their families.
Fluorodeoxyglucose positron emission tomography (FDG‐PET) for monitoring lymphadenopathy in the autoimmune lymphoproliferative syndrome (ALPS)

Autoimmune lymphoproliferative syndrome (ALPS) is associated with mutations that impair the activity of lymphocyte apoptosis proteins, leading to chronic lymphadenopathy, hepatosplenomegaly, autoimmunity, and an increased risk of lymphoma. We investigated the utility of fluorodeoxyglucose positron emission tomography (FDG‐PET) in discriminating benign from malignant lymphadenopathy in ALPS. We report that FDG avidity of benign lymph nodes in ALPS can be high and, hence, by itself does not imply presence of lymphoma; but FDG‐PET can help guide the decision for selecting which of many enlarged nodes in ALPS patients to biopsy when lymphoma is suspected. Am. J. Hematol. 81:81–85, 2006. © 2006 Wiley‐Liss, Inc.