Miracle-dz/UniFAR-FTUs huggingface dataset:
The OhrR repressor senses organic hydroperoxides by reversible formation of a cysteine-sulfenic acid derivative

Reactive oxygen species induce the expression of detoxification and repair genes critical for life in an aerobic environment. Bacterial factors that sense reactive oxygen species use either thiol-disulfide exchange reactions (OxyR, RsrA) or redox labile 2Fe–2S clusters (SoxR). We demonstrate that the reduced form of Bacillus subtilis OhrR binds cooperatively to two adjacent inverted repeat sequences in the ohrA control region and thereby represses transcription. In the presence of organic hydroperoxides, OhrR is inactivated by the reversible oxidation of a single conserved cysteine residue to the corresponding cysteine-sulfenic acid, and perhaps to higher oxidation states.
Noninvasive Electrocardiographic Imaging of Substrate and Intramural Ventricular Tachycardia in Infarcted Hearts

OBJECTIVES The goal of this study was to experimentally evaluate a novel noninvasive electrocardiographic imaging modality during intramural reentrant ventricular tachycardia (VT). BACKGROUND Myocardial infarction and subsequent remodeling produce abnormal electrophysiologic substrates capable of initiating and maintaining reentrant arrhythmias. Existing noninvasive electrocardiographic methods cannot characterize abnormal electrophysiologic substrates in the heart or the details of associated arrhythmias. A noninvasive method with such capabilities is needed to identify patients at risk of arrhythmias and to guide and evaluate therapy. METHODS A dog heart with a four-day-old infarction was suspended in a human shaped torso-tank. Measured body surface potentials were used to noninvasively compute epicardial potentials, electrograms and isochrones. Accuracy of reconstruction was evaluated by direct comparison to measured data. Reconstructions were performed during right atrial pacing and nine cycles of VT. RESULTS Noninvasively reconstructed potential maps, electrograms and isochrones identified: 1) the location of electrophysiologically abnormal infarct substrate; 2) the epicardial activation sequences during the VTs; 3) the locations of epicardial breakthrough sites; and 4) electrophysiologic evidence for activation of the Purkinje system and septum during the reentrant beats. CONCLUSIONS Electrocardiographic imaging can noninvasively reconstruct electrophysiologic information on the epicardium during VT with intramural reentry, provide information about the location of the intramural components of reentry and image abnormal electrophysiologic substrates associated with infarction. (J Am Coll Cardiol 2001;38:2071–8) © 2001 by the American College of Cardiology
Collaborative evaluation in seven laboratories of a standardized micromethod for yeast susceptibility testing

The new micromethod for yeast susceptibility testing, MYCOTOTAL, was evaluated with 10 reference strains in seven laboratories. Ready-to-use microtitration plates and the same synthetic medium were used with two dilutions of imidazoles, flucytosine, and amphotericin B, permitting the categorization of each strain as susceptible, intermediate, or resistant. The results were compared with the MIC for each reference strain, and the repeatability and reproducibility were evaluated. The yeasts tested presenting different patterns of susceptibilities in reference MICs included six strains of Candida albicans, two strains of Candida tropicalis, one strain of Candida parapsilosis, and one strain of Torulopsis glabrata. For 4,200 antifungal agent-yeast results, the repeatability was 99.3% and the reproducibility was 96.3%. The correlation between the reference MICs and the category results was 91.5% for seven laboratories (and 92.7% for six laboratories excluding the laboratory which did not follow exactly the same protocol). We observed only 7.9% minor discrepancies, 0.5% (0.29% for six laboratories) major discrepancies, and 0.1% uninterpretable results. The percentages of concording results were similar for each strain and each antifungal agent tested. The overall results indicated that MYCOTOTAL was a reliable and reproducible method, well correlated with reference MICs. This ready-to-use micromethod with the same medium for all antifungal agents would be an important step in the necessary standardization of yeast susceptibility testing.
Sensitive Detection and Identification of Organic Liquids Using the Second Derivative of Surface Plasmon Resonance Near-Infrared Spectra

Sensitive detection of near-infrared (NIR) spectra of several organic liquids has been carried out by surface plasmon resonance (SPR) NIR spectroscopy. For all the liquids, 50- to 100-fold enhancements of the absorption peaks were obtained in the combination band region 4500–4000 cm−1 using a gold film with a thickness of 14 nm. The SPR peak shows up as an unnecessary broadband peak or trend in an SPR-NIR spectrum, and it was difficult to separate it from the absorption signals. In order to remove the contribution of SPR from the raw SPR-NIR spectrum, the second-order derivative has been employed. The second derivative of the SPR-NIR spectrum was reasonably comparable to that of the corresponding transmittance spectrum. Two simple algorithms for sample identification from the second-derivative data have been proposed. One is similarity, which directly compares the second-derivative spectrum of an unknown sample with that of a known reference sample. The other is fitness, which is defined as a ratio of the common part of absorption peak wavenumbers of the sample and the reference. Although both methods are unfit for the identification of a minor component in a mixture, a major component can be definitely identified by choosing an informative wavenumber region. It was found that the wavenumber region 4250–4080 cm−1 is especially useful for the identification of similar molecules such as normal alkanes.
Midazolam Potentiates Nociceptive Behavior, Sensitizes Cutaneous Reflexes, and Is Devoid of Sedative Action in Neonatal Rats

Background:The significant postnatal maturation of &ggr;-aminobutyric acid signaling in the developing brain is likely to have important implications for infant pain processing. &ggr;-Aminobutyric acid receptor activation evokes analgesia and sedation in the adult, but the impact of immature &ggr;-aminobutyric acid signaling on modulators of the &ggr;-aminobutyric acid type A receptor, such as the benzodiazepines, is not known in infants. Methods:Nociceptive processing was measured using behavioral and electrophysiological recordings of hind limb flexor withdrawal threshold and magnitude to mechanical and thermal stimulation of the hind paw. The effects of midazolam (0.1–10 mg/kg subcutaneously, 0.1 mg/kg intrathecally) or saline treatment were compared in rats aged 3, 10, 21, and 40 days (adult). The sedative action of midazolam was assessed at each age using righting reflex latencies. Results:Midazolam dose-dependently decreased mechanical reflex thresholds and increased mechanical and thermal reflex magnitudes in neonates. In older rat pups and adults, midazolam had the reverse effect, increasing thresholds and decreasing reflex magnitude. These differences were mediated supraspinally; intrathecal administration of midazolam did not affect flexion reflexes at any age. Midazolam had no sedative action in the youngest rats; sedation increased gradually through postnatal development. Conclusions:The results show a striking reversal in the effects of midazolam on nociception and sedation in rats between postnatal days 3 and 10. Midazolam fails to sedate young rats and sensitizes their flexor reflex activity. The sedative and desensitizing effects of midazolam are not observed until later in life after maturation in supraspinal centers. The results indicate a need to better understand the pharmacology of drugs used routinely in neonatal intensive care.
Genomic instability associated with myotonic dystrophy does not involve p53 expression and activity

We tested the hypothesis that the instability of the trinucleotide CTG at the myotonic dystrophy (DM) locus could be an intrinsic DNA damage recognisable by the p53 cell‐cycle checkpoint system. p53 mRNA and protein levels were assayed in muscle biopsies and fibroblast cell lines of DM patients and unaffected controls. No differences in mRNA and protein levels were found between patients and controls, regardless of their expansion size. However, in the cells treated with adryamicin, p53 protein levels were comparable in DM and control cells. We conclude that the CTG trinucleotide expansion within the myotonin gene does not activate the p53 surveillance system, at least in adult tissues. The escape of trinucleotide expansion from the p53‐mediated DNA repair system could explain some of the biological characteristics of genome instability. © 1998 John Wiley & Sons, Ltd.
Relation between reproduction and fat reserves in female muskrat (Ondatra zibethicus)

Abstract The production and care of offspring by female mammals imposes substantial energetic costs. Muskrat (Ondatra zibethicus) is an iteroparous mammal that can produce multiple litters annually. We investigated the relation between body fat and pup production in female muskrat. There were significant negative relations between percent body fat and total number of placental scars (i.e., embryos produced) and the number of litters produced. Reduction in body fat might have resulted from reproductive effort and might decrease future survival and reproduction in muskrat.
Identification of histidine kinases that act as sensors in the perception of salt stress in Synechocystis sp. PCC 6803

In plants and microorganisms, salt stress regulates the expression of large numbers of genes. However, the machinery that senses salt stress remains to be characterized. In this study we identified sensory histidine kinases that are involved in the perception of salt stress in the cyanobacterium Synechocystis sp. strain PCC 6803. A library of strains with mutations in all 43 histidine kinases was screened by DNA microarray analysis of genomewide gene expression under salt stress. The results suggested that four histidine kinases, namely, Hik16, Hik33, Hik34, and Hik41, perceived and transduced salt signals. However, Hik33, Hik34, and Hik16 acting with Hik41 regulated the expression of different sets of genes. These histidine kinases regulated the expression of ≈20% of the salt-inducible genes, whereas the induction of the remaining salt-inducible genes was unaffected by mutations in any of the histidine kinases, suggesting that additional sensory mechanisms might operate in the perception of salt stress. We also used DNA microarrays to investigate the effect of various salts on gene expression. Our results indicate that Hik33 responds to sodium salts and not to KCl, whereas the Hik16/Hik41 system responds only to NaCl.
An Algorithm for Retrieving Soil Moisture Using L-Band H-Polarized Multiangular Brightness Temperature Data

This letter presents an algorithm for retrieving soil moisture using only H-polarized multiangular brightness temperature at L-band. We developed a parameterized surface model based on a simple-empirical model, the Hp model, for this retrieval algorithm. By analyzing a simulated database using the advanced integral equation model (AIEM), it was found that the roughness variable Hh can be parameterized as a function of an effective roughness parameter Sr = (kL · s)2-N(s/l)N. Influences of three surface roughness parameters (e.g., rms height, correlation length, and type of autocorrelation function) required to describe a rough surface on surface reflectivity were all considered in this parameterized model. Comparison with AIEM simulations over a wide range of soil conditions indicates a good performance of this model. Then, based on the ω - τ model, this algorithm is applied on refined SMOS H-polarized multiangular brightness temperature. Retrieved soil moisture in Africa exhibits reasonable patterns and temporal changes. Validation using in situ soil moisture from Little Washita watershed and Yanco over 2010-2011 showed fine accuracy with root-mean-square errors of 0.031 and 0.045 m3/m3 for two areas, respectively.
Promotoras as facilitators of change: Latinas' perspectives after participating in a lifestyle behaviour intervention program.

AIM To describe immigrant Latinas' perspectives of a lifestyle behaviour intervention, focusing on their interactions with and perceptions of the promotoras who delivered the program in the USA. BACKGROUND Immigrant Latinas in the USA have high obesity rates, which contribute to increased risk for cardiovascular disease and other long-term diseases. Interventions using the promotora model appear to be effective in reducing cardiovascular disease risk by improving dietary habits, physical activity and selected clinical variables among Latinas. However, there has been very limited enquiry into what it is about these interventions and promotoras that facilitates behaviour change, from the perspective of participants. DESIGN Grounded theory methodology guided the data collection and analysis. METHODS This qualitative study was completed in 2012 in California, after the end of a lifestyle behaviour intervention. Four focus groups and seven one-on-one interviews were conducted with a total of 18 immigrant Latina intervention participants. RESULTS Women described promotoras as helping them change by motivating them through three interconnected elements: tools, support and knowledge. Latinas viewed their ability to make lifestyle changes as connected with their emotional and psychological health and saw promotoras as counsellors who gave emotional and social support. In this respect, the intervention was emotionally therapeutic for this sample of Latinas, although this was not the original intention of the program. CONCLUSION Promotoras gave the backbone of the intervention and were crucial in motivating Latinas to implement lifestyle changes. Future lifestyle behaviour interventions should include a strong component of mental and emotional well-being.
Sustained correction of X-linked severe combined immunodeficiency by ex vivo gene therapy.

BACKGROUND X-linked severe combined immunodeficiency due to a mutation in the gene encoding the common gamma (gamma(c)) chain is a lethal condition that can be cured by allogeneic stem-cell transplantation. We investigated whether infusion of autologous hematopoietic stem cells that had been transduced in vitro with the gamma(c) gene can restore the immune system in patients with severe combined immunodeficiency. METHODS CD34+ bone marrow cells from five boys with X-linked severe combined immunodeficiency were transduced ex vivo with the use of a defective retroviral vector. Integration and expression of the gamma(c) transgene and development of lymphocyte subgroups and their functions were sequentially analyzed over a period of up to 2.5 years after gene transfer. RESULTS No adverse effects resulted from the procedure. Transduced T cells and natural killer cells appeared in the blood of four of the five patients within four months. The numbers and phenotypes of T cells, the repertoire of T-cell receptors, and the in vitro proliferative responses of T cells to several antigens after immunization were nearly normal up to two years after treatment. Thymopoiesis was documented by the presence of naive T cells and T-cell antigen-receptor episomes and the development of a normal-sized thymus gland. The frequency of transduced B cells was low, but serum immunoglobulin levels and antibody production after immunization were sufficient to avoid the need for intravenous immunoglobulin. Correction of the immunodeficiency eradicated established infections and allowed patients to have a normal life. CONCLUSIONS Ex vivo gene therapy with gamma(c) can safely correct the immune deficiency of patients with X-linked severe combined immunodeficiency.
Carotenoids, retinol, tocopherols, and prostate cancer risk: pooled analysis of 15 studies.

BACKGROUND Individual studies have suggested that circulating carotenoids, retinol, or tocopherols may be associated with prostate cancer risk, but the studies have not been large enough to provide precise estimates of associations, particularly by stage and grade of disease. OBJECTIVE The objective of this study was to conduct a pooled analysis of the associations of the concentrations of 7 carotenoids, retinol, α-tocopherol, and γ-tocopherol with risk of prostate cancer and to describe whether any associations differ by stage or grade of the disease or other factors. DESIGN Principal investigators of prospective studies provided individual participant data for prostate cancer cases and controls. Risk by study-specific fifths of each biomarker was estimated by using multivariable-adjusted conditional logistic regression in matched case-control sets. RESULTS Data were available for up to 11,239 cases (including 1654 advanced stage and 1741 aggressive) and 18,541 controls from 15 studies. Lycopene was not associated with overall risk of prostate cancer, but there was statistically significant heterogeneity by stage of disease, and the OR for aggressive disease for the highest compared with the lowest fifth of lycopene was 0.65 (95% CI: 0.46, 0.91; P-trend = 0.032). No other carotenoid was significantly associated with overall risk of prostate cancer or with risk of advanced-stage or aggressive disease. For retinol, the OR for the highest compared with the lowest fifth was 1.13 (95% CI: 1.04, 1.22; P-trend = 0.015). For α-tocopherol, the OR for the highest compared with the lowest fifth was 0.86 (95% CI: 0.78, 0.94; P-trend < 0.001), with significant heterogeneity by stage of disease; the OR for aggressive prostate cancer was 0.74 (95% CI: 0.59, 0.92; P-trend = 0.001). γ-Tocopherol was not associated with risk. CONCLUSIONS Overall prostate cancer risk was positively associated with retinol and inversely associated with α-tocopherol, and risk of aggressive prostate cancer was inversely associated with lycopene and α-tocopherol. Whether these associations reflect causal relations is unclear.
Local Correlation with Local Vol and Stochastic Vol

The purpose of this paper is to present a new calibration method that can be seen as an extension of particle methods in order to calibrate a Local Correlation on a Index Smile or Basket Smile, when the underlying model is a local volatility model or a local-stochastic volatility model. We also evoke the decorrelation effect that is observed in Stochastic Volatility compared to Local Volatility. We eventually consider different widespread products and analyze their prices in different models.
Symbolism and Tokenism in Constitutional Reform of Australian Local Government

Support for a third attempt at constitutional recognition of Australian local government since 1974 is now bipartisan. Yet the desirability of reform, its eventual shape and its electoral viability all remain contestable. This paper argues that the debate on constitutional recognition of local government at the federal level has been hampered by a misconception over the nature of political symbolism, both with respect to constitutional recognition and in local politics more generally. Against the background of previous attempts at constitutional recognition, this paper examines current support for constitutional change, as investigated by Brown (2008). Our interpretation of Brown's analysis suggests that political symbolism as defined by Archer (1997) can perform an important role in encouraging Australians' further valuing of local government, thereby enhancing the possibility of constitutional recognition.
Endometrial changes in postmenopausal breast cancer patients receiving tamoxifen.

OBJECTIVE To assess the estrogenic effect of tamoxifen and associated pathologic changes of the endometrium in postmenopausal breast cancer patients. METHODS The endometrium of 103 gynecologically asymptomatic postmenopausal breast cancer patients was examined. Fifty-one had been treated with tamoxifen and 52 had not received any hormonal treatment. The two groups were similar in age, parity, age at menopause, and body mass index. RESULTS Compared with the control subjects, the tamoxifen patients had a thicker endometrium (mean +/- standard deviation 10.4 +/- 5.0 versus 4.2 +/- 2.7 mm; P = .0001) and larger uterine volume (45 +/- 27 versus 25 +/- 11 cm3; P = .001), as determined by transvaginal sonography. Hysteroscopy showed an atrophic endometrium in 28% of the patients in the tamoxifen group, as compared with 87% of the control patients (P = .0001). Endometrial polyps were more frequent in the tamoxifen group (36 versus 10%; P = .004), which included one patient with atypical hyperplasia, one with adenomatous hyperplasia, and one with endometrial adenocarcinoma; two controls had endometrial adenocarcinoma. CONCLUSION The results provide evidence for an estrogenic effect of long-term tamoxifen treatment on the postmenopausal uterus and show it to be associated with an increased occurrence of polyps.
In Vivo Splenic Clearance Correlates with In Vitro Deformability of Red Blood Cells from Plasmodium yoelii-Infected Mice

ABSTRACT Recent experimental and clinical studies suggest a crucial role of mechanical splenic filtration in the host's defense against malaria parasites. Subtle changes in red blood cell (RBC) deformability, caused by infection or drug treatment, could influence the pathophysiological outcome. However, in vitro deformability measurements have not been directly linked in vivo with the splenic clearance of RBCs. In this study, mice infected with malaria-inducing Plasmodium yoelii revealed that chloroquine treatment could lead to significant alterations to RBC deformability and increase clearance of both infected and uninfected RBCs in vivo. These results have clear implications for the mechanism of human malarial anemia, a severe pathological condition affecting malaria patients.
A herpesvirus of rhesus monkeys related to the human Kaposi's sarcoma-associated herpesvirus

A herpesvirus that is related to but distinct from the Kaposi's sarcoma-associated herpesvirus (KSHV, or human herpesvirus 8) was isolated from rhesus monkeys. The sequence of 10.6 kbp from virion DNA revealed the presence of an interleukin-6 homolog similar to what is present in KSHV and a closer relatedness of the DNA polymerase and glycoprotein B reading frames to those of KSHV than to those of any other herpesvirus. This rhesus monkey herpesvirus replicated lytically and to high titers in cultured rhesus monkey fibroblasts. Antibody testing revealed a high prevalence for at least 10 years in our rhesus monkey colony and a high prevalence in two other colonies that were tested. Thus, rhesus monkeys naturally harbor a virus related to KSHV, which we have called RRV, for rhesus monkey rhadinovirus.