Miracle-dz/UniFAR-FTUs huggingface dataset:
Glycerol export and glycerol-3-phosphate dehydrogenase, but not glycerol phosphatase, are rate limiting for glycerol production in Saccharomyces cerevisiae.

Glycerol, one of the most important by-products of alcoholic fermentation, has positive effects on the sensory properties of fermented beverages. It was recently shown that the most direct approach for increasing glycerol formation is to overexpress GPD1, which encodes the glycerol-3-phosphate dehydrogenase (GPDH) isoform Gpd1p. We aimed to identify other steps in glycerol synthesis or transport that limit glycerol flux during glucose fermentation. We showed that the overexpression of GPD2, encoding the other isoform of glycerol-3-phosphate dehydrogenase (Gpd2p), is equally as effective as the overexpression of GPD1 in increasing glycerol production (3.3-fold increase compared to the wild-type strain) and has similar effects on yeast metabolism. In contrast, overexpression of GPP1, encoding glycerol 3-phosphatase (Gpp1p), did not enhance glycerol production. Strains that simultaneously overexpress GPD1 and GPP1 did not produce higher amounts of glycerol than a GPD1-overexpressing strain. These results demonstrate that GPDH, but not the glycerol 3-phosphatase, is rate-limiting for glycerol production. The channel protein Fps1p mediates glycerol export. It has recently been shown that mutants lacking a region in the N-terminal domain of Fps1p constitutively release glycerol. We showed that cells producing truncated Fps1p constructs during glucose fermentation compensate for glycerol loss by increasing glycerol production. Interestingly, the strain with a deregulated Fps1 glycerol channel had a different phenotype to the strain overexpressing GPD genes and showed poor growth during fermentation. Overexpression of GPD1 in this strain increased the amount of glycerol produced but led to a pronounced growth defect.
Structural features of plant subtilases

Serine proteases of the subtilase family are present in Archaea, Bacteria, and Eukarya. Many more subtilases are found in plants as compared to other organisms, implying adaptive significance for the expansion of the subtilase gene family in plants. Structural data, however, were hitherto available only for non-plant subtilases. We recently solved the first structure of a plant subtilase, SlSBT3 from tomato (Solanum lycopersicum). SlSBT3 is a multidomain enzyme displaying a subtilisin, a Protease-Associated (PA) and a fibronectin (Fn) III-like domain. Two prominent features set SlSBT3 apart from other structurally elucidated subtilases: (1) activation by PA domain-mediated homo-dimerization and (2) calcium-independent activity and thermostability. To address the question whether these characteristics are unique features of SlSBT3, or else, general properties of plant subtilases, homology models were calculated for representative proteases from tomato and Arabidopsis using the SlSBT3 structure as template. We found the major structural elements required for the stabilization of the subtilisin domain to be conserved among all enzymes analyzed. PA domain-mediated dimerization as an auto-regulatory mechanism of enzyme activation, on the other hand, appears to be operating in only a subset of the analyzed subtilases.
Hha, YbaJ, and OmpA regulate Escherichia coli K12 biofilm formation and conjugation plasmids abolish motility

Escherichia coli Hha is an environmental‐response regulator of the pathogenic hemolysin operon, and Hha and the contiguous YbaJ are both induced 30‐fold in E. coli biofilms (Appl. Microbiol. Biotechnol. 64:515, 2004). Here it is shown that Hha and YbaJ regulate biofilm formation since the hha/ybaJ deletion reduces biofilm mass in microtitre plates (81% in minimal medium, 50% in complex medium) and in flow cells (1,000‐fold less surface coverage in minimal medium). The addition of the derepressed conjugative plasmid R1drd19, which increases significantly biofilm formation, eliminated motility completely in wild‐type E. coli K12, promoted cell aggregation 27.18 ± 0.05‐fold, and produced a flatter biofilm. Deletion of hha/ybaJ or ybaJ restored motility (this motility phenotype may be complemented by providing hha+/ybaJ+ or ybaJ+ in trans) and reduced cell aggregation to that of the wild‐type strain that lacks the conjugation plasmid. This increase in motility due to deleting hha/ybaJ was found to be due to 8‐fold induction of fliA transcription. In addition, deletion of ompA reduced biofilm mass by 80% in both LB medium and LB medium with glucose. Also, Hha/YbaJ promotes conjugation since there was five‐fold less conjugation in the hha/ybaJ mutant. It appears that conjugation plasmids promote biofilm formation by promoting cell aggregation, and that Hha and YbaJ increase biofilm formation by increasing conjugation and by decreasing motility when a conjugative plasmid (R1drd19) is present (YbaJ plays the most important role in this regulation of motility). When hha/ybaJ are deleted, there is less conjugation, less aggregation, more motility, and less biofilm. © 2005 Wiley Periodicals, Inc.
Eradication of Minimal Residual Disease with Alemtuzumab in B-Cell Chronic Lymphocytic Leukemia (B-CLL) Patients: The Need for a Standard Method of Detection and the Potential Impact of Bone Marrow Clearance on Disease Outcome

The introduction of new therapeutic agents, such as fludarabine phosphate (Fludara) and alemtuzumab (MabCampath, Campath), has made it possible to treat B-cell chronic lymphocytic leukemia (B-CLL) more effectively, compared with alkylating agents. However, although an increasing number of patients are able to achieve complete remission (CR), relapse is almost inevitable, because of the re-emergence of the malignant clone from small numbers of residual malignant cells. This phenomenon has introduced a need for a more sensitive assessment of low-level disease which, in turn, has encouraged the development of therapies aimed at the eradication of all residual disease in CR patients. The eradication of residual disease is associated with improved remission durability and has great potential in offering the possibility of cure. Alemtuzumab is the foundation of many eradication-based treatment approaches because of its ability to achieve clinical remissions and to successfully purge minimal residual disease (MRD) from both blood and bone marrow in B-CLL patients. This article describes and compares polymerase chain reaction (PCR) and flow cytometric methodologies for the assessment of MRD, and presents data demonstrating that alemtuzumab can eliminate residual malignant cells from blood and bone marrow (whether assessed by PCR or flow cytometry) at the highest levels of sensitivity currently available. The ability to clear MRD from bone marrow in patients achieving clinical CR using alemtuzumab is a significant step forward in the treatment of B-CLL, and supports treatment strategies in which alemtuzumab is used in combination with other agents. Purging of MRD from both blood and bone marrow also enables patients to proceed to autologous hematopoietic stem cell transplantation, a strategy that is able to achieve long-term remission.
How to Select and Interpret Molecular Strain Typing Methods for Epidemiological Studies of Bacterial Infections A Review for Healthcare Epidemiologists

Abstract Strain typing is an integral part of epidemiological investigations of nosocomial infections. Methods for distinguishing among bacterial strains have improved dramatically over the last 5 years, due mainly to the introduction of molecular technology. Although not all molecular techniques are equally effective for typing all organisms, pulsed-field gel electrophoresis is the technique currently favored for most nosocomial pathogens. Criteria to aid epidemiologists in interpreting results have been published. Nucleic acid amplification-based typing methods also are applicable to many organisms and can be completed within a single day, but interpretive criteria still are under debate. Strain typing cannot be used to replace a sound epidemiological investigation, but serves as a useful adjunct to such investigations.
Iron is a substrate of the Plasmodium falciparum chloroquine resistance transporter PfCRT in Xenopus oocytes

The chloroquine resistance transporter of the human malaria parasite Plasmodium falciparum, PfCRT, is an important determinant of resistance to several quinoline and quinoline-like antimalarial drugs. PfCRT also plays an essential role in the physiology of the parasite during development inside erythrocytes. However, the function of this transporter besides its role in drug resistance is still unclear. Using electrophysiological and flux experiments conducted on PfCRT-expressing Xenopus laevis oocytes, we show here that both wild-type PfCRT and a PfCRT variant associated with chloroquine resistance transport both ferrous and ferric iron, albeit with different kinetics. In particular, we found that the ability to transport ferrous iron is reduced by the specific polymorphisms acquired by the PfCRT variant as a result of chloroquine selection. We further show that iron and chloroquine transport via PfCRT is electrogenic. If these findings in the Xenopus model extend to P. falciparum in vivo, our data suggest that PfCRT might play a role in iron homeostasis, which is essential for the parasite's development in erythrocytes.
Mirror Symmetry in 3 d supersymmetric gauge theories

An introduction to studies of moduli spaces of vacua for the purposes of mirror symmetry in 3dN = 4 supersymmetric gauge theories is presented. We first consider the established techniques of calculating the Hilbert series, which is the partition function counting gauge invariant BPS operators at all orders in the fields, as they are applied to the Higgs branch of quiver gauge theories. The Higgs branch does not receive quantum corrections and computations of the partition function can be approached classically by considering F-terms and D-terms of the superpotential for the N = 2 theory. Unlike the Higgs branch, the Coulomb branch receives quantum corrections and it’s notoriously difficult to characterise. We introduce a new technique which exploits monopole operators in order to compute the Hilbert series on the Coulomb branch of quiver gauge theories. We are then able to test mirror symmetry by comparing the partition functions of the Higgs branch and Coulomb branch of predicted dual theories.
Translocations in Prader-Willi syndrome.

The Prader-Willi Syndrome (PWS) has frequently been associated with chromosomal anomalies involving the region 15q11-q12. The first case of this syndrome associated with a de novo translocation involving chromosomes 11 and 15 is reported. The breakpoints were identified as 11q25 and 15q11 or q12[45, XX,t(11;15)(q25;q11-12)], resulting in the deletion of 15pter leads to 15q11-q12. Previously reported cases of PWS associated with translocations are reviewed in relation to the "deletion hypothesis. "
Amelioration of progressive renal injury by genetic manipulation of Klotho gene

Klotho, an antiaging gene with restricted organ distribution, is mainly expressed in the kidney tubules; the mutant mice have shortened life span, arteriosclerosis, anemia, and osteoporesis, features common to patients with chronic renal failure. Conceivably, the reduction of the Klotho gene expression may contribute to the development of kidney failure; alternatively, its overexpression may lead to the amelioration of renal injury in an ICR-derived glomerulonephritis (ICGN) mouse model with subtle immune complex-mediated disease. To address this issue, four different strains of mice were generated by cross-breeding: ICGN mice without the Klotho transgene (ICGN), ICGN mice with the Klotho transgene (ICGN/klTG), wild-type mice with the Klotho transgene (klTG), and wild-type mice without the Klotho transgene (control). At 40 weeks old, the survival rate was ≈30% in ICGN mice, and ≈70% in the ICGN/klTG group. This improvement was associated with dramatic improvement in renal functions, morphological lesions, and cytochrome c oxidase activity but a reduction in β-galactosidase activity (a senescence-associated protein), mitochondrial DNA fragmentation, superoxide anion generation, lipid peroxidation, and Bax protein expression and apoptosis. Interestingly, improvement was seen in both the tubular and glomerular compartments of the kidney, although Klotho is exclusively confined to the tubules, suggesting that its gene product has a remarkable renoprotective effect by potentially serving as a circulating hormone while mitigating the mitochondrial oxidative stress.
Movement of yeast 1,3‐β‐glucan synthase is essential for uniform cell wall synthesis

Background: The cell wall has an important role in maintaining cell shape. In the budding yeast Saccharomyces cerevisiae, the major filamentous component of the cell wall responsible for its rigidity is 1,3‐β‐glucan and is synthesized by 1,3‐β‐glucan synthase (GS), localized on the plasma membrane.
Association of Screen Time Use and Language Development in Hispanic Toddlers

This study examined the association between screen media use, media content, and language development among 119 Hispanic infants and toddlers. Children and their caregivers were recruited through an urban, Early Head Start program. Duration and content of screen media exposure was measured through a 24-hour recall questionnaire, and language development was measured at baseline and at 1-year follow up. Children in the sample spent an average of 3.29 hours engaged with screen media (median 2.5 hours per day). In both cross-sectional and longitudinal analyses, children who watched over 2 hours of television per day had increased odds of low communication scores. Whereas child-directed media was associated with low language scores, adult-directed media was not. Our findings support the mounting literature on the deleterious impacts of screen media in toddler’s language development. Guidance and alternatives to screen media use should be available to families in pediatric practices and early childhood centers.
Enhance Image Transmission Based on DWT O with Pixel

The recent growth of using multimedia transmission over wireless communication systems, have challenges to protect the data from lost due to wireless channel effect. Images are corrupted due to the noise and fading when transmitted over wireless channel, in wireless channel the image is transmitted block by block, Due to severe fading, entire image blocks can be damaged. The aim of this paper comes out from need to enhance the digital images at the wireless receiver side. Proposed Boundary Interpolation (BI) Algorithm using wavelet, have been adapted here used to reconstruction the lost block in the image at the receiver depend on the correlation between the lost block and its neighbors. New Proposed technique by using Boundary Interpolation (BI) Algorithm using wavelet with Pixel interleaver has been implemented. Pixel interleaver work on distribute the pixel to new pixel position of original image before transmitting the image. The block lost through wireless channel is only effects individual pixel. The lost pixels at the receiver side can be recovered by using Boundary Interpolation (BI) Algorithm using wavelet. The results showed that the New proposed algorithm boundary interpolation (BI) using wavelet with pixel interleaver is better in term of MSE and PSNR. Keywords—Image Transmission, Wavelet, Pixel Interleaver, Boundary Interpolation Algorithm
Binding of complement component C3b to glycoprotein C is modulated by sialic acid on herpes simplex virus type 1-infected cells

Neuraminidase treatment of cells infected with herpes simplex virus type 1 (HSV-1) markedly enhanced the binding of complement component C3b to HSV 1 glycoprotein C (gC). When HSV-1 was grown in BHK RicR14 cells in which glycoproteins had reduced amounts of N-linked complex oligosaccharides, including sialic acid, the binding of C3b to gC was markedly enhanced. We used neuraminidase treatment to demonstrate that cloning the gC gene from the HSV-1 F strain into an HSV-1 mutant which fails to express gC converted the mutant virus from C3b receptor negative to receptor positive. These results further support a role for gC as a C3b receptor and indicate that sialic acid modifies receptor activity.
Neuroprotection by stem cell factor in rat cortical neurons involves AKT and NFκB

Stem cell factor (SCF) is a highly expressed cytokine in the central nervous system. In the present study, we demonstrate a neuroprotective role for SCF and its tyrosine kinase receptor, c‐kit, against camptothecin‐induced apoptosis and glutamate excitotoxicity in rat cortical neurons. This protection was blocked by pharmacological or molecular inhibition of either the MEK/ERK or PI3K/Akt signaling pathways. The importance of these pathways was further confirmed by the activation of both ERK, in a MEK‐dependent manner, and Akt, via PI3K. Activation of Akt increased the binding of the p50 and p65 subunits of NFκB, which was also important for neuroprotection. Akt inhibition prevented NFκB binding, suggesting a role for Akt in SCF‐induced NFκB. Pharmacological inhibition of NFκB or dominant negative IκB also prevented neuroprotection by SCF. SCF up‐regulated the anti‐apoptotic genes, bcl‐2 and bcl‐xL in an NFκB‐dependent manner. Together, these findings demonstrate a neuroprotective role for SCF in cortical neurons, an effect that was mediated by Akt and ERK, as well as NFκB‐mediated gene transcription. SCF represents a novel therapeutic target in the treatment of neurodegenerative disease.
Path planning using flat potential field approach

The work illustrated in this paper concerns a new technique for resolving the problem of path planning in a static environment; this technique is called flat potential field. This new approach combines the simplicity of application of exact cell decomposition with the efficiency of local algorithms such as the potential field. The paper describes, in detail the phases that make up the algorithm, and demonstrates its capabilities with simulation examples. Finally, conclusions and hypotheses on the future applications of the algorithm are presented
Recent insights into Protein Phosphatase 2A structure and regulation: the reasons why PP2A is no longer considered as a lazy passive housekeeping enzyme

Nouvelles avancees dans la structure et la regulation de la Proteine Phosphatase 2A : les raisons pour lesquelles PP2A ne doit plus etre consideree comme une enzyme passive et non specifique. La phosphorylation reversible de proteines regulatrices intervient dans virtuellement tous les processus biologiques chez les organismes superieurs. La Proteine Phosphatase 2A (PP2A) est une phosphatase tres abondante composee d'un noyau dimerique contenant une sous-unite catalytique (C) et une sous-unite structurale (A), auquel est associe une sous-unite regulatrice (B) variable. Bien que consideree dans le passe comme une enzyme constitutive non specifique, PP2A est une phosphatase soumise a une regulation precise et qui est importante dans le controle des fonctions cellulaires impliquant la phosphorylation. Cette regulation est principalement accomplie par l'identite de la sous-unite regulatrice qui determine la specificite de substrat, la localisation cellulaire et l'activite catalytique de l'holoenzyme PP2A. Les nouvelles avancees sur le sujet, particulierement sur la structure et la regulation basee sur des modifications post-traductionnelles de PP2A, soulignent bien l'importance de la composition de l'holoenzyme PP2A dans les multiples roles de cette enzyme majeure.
CINEMO — A French Spoken Language Resource for Complex Emotions: Facts and Baselines

The CINEMO corpus of French emotional speech provides a richly annotated resource to help overcome the apparent lack of learning and testing speech material for complex, i.e. blended or mixed emotions. The protocol for its collection was dubbing selected emotional scenes from French movies. 51 speakers are contained and the total speech time amounts to 2 hours and 13 minutes and 4k speech chunks after segmentation. Extensive labelling was carried out in 16 categories for major and minor emotions and in 6 continuous dimensions. In this contribution we give insight into the corpus statistics focusing in particular on the topic of complex emotions, and provide benchmark recognition results obtained in exemplary large feature space evaluations. In the result the labelling oft he collected speech clearly demonstrates that a complex handling of emotion seems needed. Further, the automatic recognition experiments provide evidence that the automatic recognition of blended emotions appears to be feasible.
PIP3 inhibition of RGS protein and its reversal by Ca2+/calmodulin mediate voltage-dependent control of the G protein cycle in a cardiac K+ channel

Regulators of G protein signaling (RGS) accelerate intrinsic GTP hydrolysis on α subunits of trimeric G proteins and play crucial roles in the physiological regulation of G protein-mediated cell signaling. The control mechanisms of the action of RGS proteins per se are poorly clarified, however. We recently showed a physiological mode of action of a RGS protein in cardiac myocytes. The voltage-dependent formation of Ca2+/calmodulin facilitated the GTPase activity of RGS by an unidentified mechanism, which underlay the “relaxation” behavior of G protein-gated K+ (KG) channels. Here we report the mechanism which is the reversal by Ca2+/calmodulin of phosphatidylinositol-3,4,5,-trisphosphate (PIP3)-mediated inhibition of RGS. Purified RGS4 protein alone inhibited GTP-induced KG channel activity in inside-out patches from atrial myocytes. The inhibitory effect of RGS4 was reduced by PIP3 and restored by addition of Ca2+/calmodulin. The intracellular application of anti-PIP3 antibody abolished the RGS-dependent relaxation behavior of KG current in atrial myocytes. This study, therefore, reveals a general physiological control mechanism of RGS proteins by lipid–protein interaction.
Comparison of antibiotic resistance and virulence factors in pigmented and non-pigmented Pseudomonas aeruginosa.

OBJECTIVE Pseudomonas aeruginosa produces multiple virulence factors that have been implicated in pathogenesis and quorum sensing. The aim of this study was to determine differences in the virulence factors of pigmented and non-pigmented P aeruginosa isolates. METHODS Associations were assessed between pigment production (pyocyanin and pyoverdin) and production of DNase, elastase, lipase, protease, siderophore, twitching motility, antibiotic resistance patterns and virulence-associated genes in 57 non-duplicate P aeruginosa isolates from wounds, sputum, urine, high vaginal swab (HVS), ear, eye and respiratory tract swabs and aspirates of peritoneum and ulcers. RESULTS Most (82.5%) of the isolates produced either pigment. Pigmented isolates produced more frequently and significant more (p < 0.05) DNase, elastase, lipase protease, and siderophore. Imipenem was the only antibiotic to which all isolates were susceptible (p < 0.05), while 93% and 32% were resistant to tetracycline and norfloxacin, respectively. There was however no significant difference between pigmented and non-pigmented isolates when antibiotic resistance was compared. While isolates had multiple virulence-associated genes, exoS (51%), rhlA (37%) and rhlB (46%) were the predominant genes detected. Except for exoY, genes were present in pigmented isolates more frequently than in non-pigmented isolates. CONCLUSION The results of this study suggest that antibiotic resistance per se might not be associated with the pigment production in P aeruginosa. However pigment production appeared to be more significantly associated with multi-drug resistance, presence of virulence-associated genes, and expression of certain virulence factors, most notably elastase, protease, siderophore and DNase activity. Since pigment production is easy to determine, this might to be a good starting point to identify the virulence status of an isolate.