Miracle-dz/UniFAR-FTUs huggingface dataset:
Pathway Analysis and Metabolites Identification by Metabolomics of Etiolation Substrate from Fresh-Cut Chinese Water Chestnut (Eleocharis tuberosa)

Fresh-cut Chinese water chestnuts (CWC) turn yellow after being peeled, reducing their shelf life and commercial value. Metabolomics, the systematic study of the full complement of small molecular metabolites, was useful for clarifying the mechanism of fresh-cut CWC etiolation and developing methods to inhibit yellowing. In this study, metabolic alterations associated with etiolation at different growth stages (0 day, 2 days, 3 days, 4 days, 5 days) from fresh-cut CWC were investigated using LC–MS and analyzed by pattern recognition methods (principal component analysis (PCA), partial least squares-discriminant analysis (PLS-DA), and orthogonal projection to latent structures-discriminant analysis (OPLS-DA)). The metabolic pathways of the etiolation molecules were elucidated. The main metabolic pathway appears to be the conversion of phenylalanine to p-coumaroyl-CoA, followed by conversion to naringenin chalcone, to naringenin, and naringenin then following different pathways. Firstly, it can transform into apigenin and its derivatives; secondly, it can produce eriodictyol and its derivatives; and thirdly it can produce dihydrokaempferol, quercetin, and myricetin. The eriodictyol can be further transformed to luteolin, cyanidin, dihydroquercetin, dihydrotricetin, and others. This is the first reported use of metabolomics to study the metabolic pathways of the etiolation of fresh-cut CWC.
The Effect of a Low Carbohydrate Beverage with Added Protein on Cycling Endurance Performance in Trained Athletes

Ferguson-Stegall, L, McCleave, EL, Ding, Z, Kammer, LM, Wang, B, Doerner, PG, Liu, Y, and Ivy, JL. The effect of a low carbohydrate beverage with added protein on cycling endurance performance in trained athletes. J Strength Cond Res 24(10): 2577-2586, 2010-Ingesting carbohydrate plus protein during prolonged variable intensity exercise has demonstrated improved aerobic endurance performance beyond that of a carbohydrate supplement alone. The purpose of the present study was to determine if a supplement containing a mixture of different carbohydrates (glucose, maltodextrin, and fructose) and a moderate amount of protein given during endurance exercise would increase time to exhaustion (TTE), despite containing 50% less total carbohydrate than a carbohydrate-only supplement. We also sought post priori to determine if there was a difference in effect based on percentage of ventilatory threshold (VT) at which the subjects cycled to exhaustion. Fifteen trained male and female cyclists exercised on 2 separate occasions at intensities alternating between 45 and 70% &OV0312;o2max for 3 hours, after which the workload increased to ∼74-85% &OV0312;o2max until exhaustion. Supplements (275 mL) were provided every 20 minutes during exercise, and these consisted of a 3% carbohydrate/1.2% protein supplement (MCP) and a 6% carbohydrate supplement (CHO). For the combined group (n = 15), TTE in MCP did not differ from CHO (31.06 ± 5.76 vs. 26.03 ± 4.27 minutes, respectively, p = 0.064). However, for subjects cycling at or below VT (n = 8), TTE in MCP was significantly greater than for CHO (45.64 ± 7.38 vs. 35.47 ± 5.94 minutes, respectively, p = 0.006). There were no significant differences in TTE for the above VT group (n = 7). Our results suggest that, compared to a traditional 6% CHO supplement, a mixture of carbohydrates plus a moderate amount of protein can improve aerobic endurance at exercise intensities near the VT, despite containing lower total carbohydrate and caloric content.
The induction of virus-specific cytotoxic T lymphocytes with solubilized viral and membrane proteins

Reconstituted membranes were prepared from detergent solubilized P815 (H-2d) tumor cell membranes and solubilized Sendai virus protein. These reconstituted membranes stimulated a virus-specific H-2-restricted secondary CTL response. Stimulating activity was dependent upon the presence of both viral and P815 protein in the same membrane and was restricted to the H-2 specificity present in the reconstituted membrane. Liposomes prepared from solubilized Sendai virus proteins and partially purified H-2 alloantigen also had activity for CTL induction. The results demonstrate the feasibility of using detergent solubilized membrane proteins to study antigen recognition by virus-specific, H-2 restricted cytolytic T lymphocytes.
Risk factors of vitamin K antagonist overcoagulation.

OBJECTIVES The aims of this prospective study were to identify, in vitamin K antagonist (VKA)-treated patients, factors associated with INR values: (i) greater than 6.0. and (ii) ranging from 4.0 to 6.0 complicated with bleeding. We also assessed VKA-related morbidity in these patients. METHODS During a 6-month period, 3090 consecutive patients were referred to our Department of Internal Medicine, including 412 VKA-treated patients. At admission, the medical records of VKA-treated patients were reviewed for type, duration and indication of VKA therapy, previous medical history of VKA-related hemorrhage, comorbidities and concomitant medications. RESULTS Forty of the 412 VKA-treated patients (9.7%) exhibited oral anticoagulant related overcoagulation. VKA overcoagulation was associated with high morbidity, leading to major bleeding in 27.5% of cases; moreover, 12.5% of these patients died, death being mainly due to major bleeding. Under multivariate analysis, significant factors for VKA-related overcoagulation were as follows: previous medical history of VKA therapy-related hemorrhage (P=0.00001) and INR levels over therapeutic range (P=0.0006), chronic liver disease (P=0.03), therapy with amiodarone (P=0.009); in contrast, statin therapy was found to be a protective factor of VKA overcoagulation (P=0.008). CONCLUSIONS The knowledge of predictive factors of VKA-related overcoagulation seems of utmost importance to improve patients' management. Our study underlines the fact that the potential of drug interaction should be taken into account when choosing amiodarone for patients receiving VKAs. Interestingly, long-term (>6 month) statin therapy may be a protective factor of VKA overcoagulation. Our findings, therefore, suggest that there may be no need to switch long-term users of VKA and statin to a safer alternative therapy.
Age-Related Trends of Interference Control in School-Age Children and Young Adults in the Stroop Color–Word Test

In this cross-sectional study, differences in interference control, one component of executive function, were investigated among three age groups, 15 early childhood (7- to 8-yr.-olds), 25 middle childhood (9- to 12-yr.-olds), and 20 young adults (21- to 30-yr.-olds). Participants were administered a computer version of the Stroop color–word test with an oral response; correct responses, response time (RT), and the interference ratio were examined. The data indicated that (1) most of the participants showed no errors in word reading, color-naming, and incongruent color-naming tasks; (2) in word-reading and color-naming tasks, RT for 7- to 8-yr. -olds was longer than that for 9- to 12-yr. -olds, while RT of 9- to 12-yr. -olds and young adults were comparable; (3) in an incongruent color-naming task, RT for 7- to 8-yr. -olds was longer than RT for 9- to 12-yr. -olds, which was longer than RT for young adults; and (4) the interference ratio was higher in 7- to 8-yr. -olds than in 9- to 12-yr. -olds, which was higher than in young adults. These results suggested the difference in interference control between early and middle childhood reported on the go/no-go task and the stop-signal procedure would be observed in the Stroop color–word paradigm as well. The utility of this modified Stroop color–word test for those with intellectual and developmental disabilities was discussed.
Using spatial uncertainty of prior measurements to design adaptive sampling of elevation data.

Field sampling can be a major expense for planning within-field management in precision agriculture. An efficient sampling strategy should address knowledge gaps, rather than exhaustively collect redundant data. Modification of existing schemes is possible by incorporating prior knowledge of spatial patterns within the field. In this study, spatial uncertainty of prior digital elevation model (DEM) estimates was used to locate adaptive re-survey regions in the field. An agricultural vehicle equipped with RTK-DGPS was driven across a 2.3 ha field area to measure the field elevation in a continuous fashion. A geostatistical simulation technique was used to simulate field DEMs using measurements with different pass intervals and to quantitatively assess the spatial uncertainty of the DEM estimates. The high-uncertainty regions for each DEM were classified using image segmentation methods, and an adaptive re-survey was performed on those regions. The addition of adaptive re-surveying substantially reduced the time required to resample and resulted in DEMs with lower error. For the widest sampling pass width, the RMSE of 0.46 m of the DEM produced from an initial coarse sampling survey was reduced to 0.25 m after an adaptive re-survey, which was close to that (0.22 m) of the DEM produced with an all-field re-survey. The estimated sampling time for the adaptive re-survey was less than 50% of that for all-field re-survey. These results indicate that spatial uncertainty models are useful in an adaptive sampling design to help reduce sampling cost while maintaining the accuracy of the measurements. The method is general and thus not limited to elevation data but can be extended to other spatially variable field data.
Sparse Principal Components Analysis

Principal components analysis (PCA) is a classical method for the reduction of dimensionality of data in the form of n observations (or cases) of a vector with p variables. For a simple model of factor analysis type, it is proved that ordinary PCA can produce a consistent (for n large) estimate of the principal factor if and only if p(n) is asymptotically of smaller order than n. There may be a basis in which typical signals have sparse representations: most co-ordinates have small signal energies. If such a basis (e.g. wavelets) is used to represent the signals, then the variation in many coordinates is likely to be small. Consequently, we study a simple "sparse PCA" algorithm: select a subset of coordinates of largest variance, estimate eigenvectors from PCA on the selected subset, threshold and reexpress in the original basis. We illustrate the algorithm on some exercise ECG data, and prove that in a single factor model, under an appropriate sparsity assumption, it yields consistent estimates of the principal factor.
Antigen-specific expansion and differentiation of natural killer cells by alloantigen stimulation

Nabekura and Lanier provide evidence that alloantigen stimulation of mouse NK cells promotes the in vivo expansion and generation of memory-like NK cells. NK cells expressing the activating Ly49D receptor preferentially expand and differentiate when challenged with allogeneic cells in an inflammatory environment, but this can be suppressed if NK cells also express the inhibitory Ly49A receptor which recognizes the same ligand. Recall responses were driven by expression of activating Ly49 receptors and regulated by inhibitory MHC I receptors.
Yng2p-dependent NuA4 Histone H4 Acetylation Activity Is Required for Mitotic and Meiotic Progression*

In all eukaryotes, multisubunit histone acetyltransferase (HAT) complexes acetylate the highly conserved lysine residues in the amino-terminal tails of core histones to regulate chromatin structure and gene expression. One such complex in yeast, NuA4, specifically acetylates nucleosome-associated histone H4. Recent studies have revealed that NuA4 comprises at least 11 subunits, including Yng2p, a yeast homolog of the candidate human tumor suppressor gene, ING1. Consistent with prior data, we find that cells lacking Yng2p are deficient for NuA4 activity and are temperature-sensitive. Furthermore, we show that the NuA4 complex is present in the absence of Yng2p, suggesting that Yng2p functions to maintain or activate NuA4 HAT activity. Sporulation of diploidyng2 mutant cells reveals a defect in meiotic progression, whereas synchronized yng2 mutant cells display a mitotic delay. Surprisingly, genome-wide expression analysis revealed little change from wild type. Nocodazole arrest and release relieves the mitotic defects, suggesting that Yng2p may have a critical function prior to or during metaphase. Rather than a uniform decrease in acetylated forms of histone H4, we find striking cell-to-cell heterogeneity in the loss of acetylated histone H4 in yng2mutant cells. Treating yng2 mutants with the histone deacetylase inhibitor trichostatin A suppressed the mitotic delay and restored global histone H4 acetylation, arguing that reduced H4 acetylation may underlie the cell cycle delay.
Comparison of the Intravenous and Epidural Administration of Tumor Necrosis Factor-alpha Antagonists in an Experimental Rat Pain Model

Introduction: Inflammatory cytokines secreted from the nucleus pulposus are thought to lead to lumbar nerve root compression-like symptoms. Tumor necrosis factor-alpha (TNF-α), an inflammatory cytokine, likely plays an important role in lumbar disc hernia-related leg pain. In this experimental study, we compared the effectiveness of TNF-α antagonists administered through the intravenous or epidural route in lumbar spine pathologies. Materials and Methods: After ethics committee approval had been obtained, 24 Sprague Dawley male rats aged 70–90 days and weighing 250–300 g each were allocated to four groups. In Group I, only the surgical procedure was performed; in Group II, 1 ml of saline solution was administered into the epidural field; in Group III, 10 mg/kg of infliximab was administered into the coccygeal vein; and in Group IV (epidural group), 25 mg of etanercept was administered into the epidural region. Results: When the left leg pull values were analyzed on day 14, whereas there was not a significant difference among the three groups, a decreasing difference was observed in Group IV (P < 0.05). When the 21st and 28th day left leg pull values were compared between groups, the values from Groups II, III, and IV were significantly lower than those of Group I (P < 0.05). Conclusion: The absence of a difference between the baseline values and left leg pull values on days 14, 21, and 28 in Group IV indicates that recovery began on day 21 with the epidural administration of etanercept. There was no difference between intravenous saline administration and intravenous infliximab administration with regard to the start of the recovery. In the present study of rats with discopathy, TNF-α antagonists administered epidurally led to earlier recovery from radiculopathy-related allodynia compared to intravenous administration.
Quantitative genetics of floral traits in a gynodioecious wild strawberry Fragaria virginiana: implications for the independent evolution of female and hermaphrodite floral phenotypes

The independent evolution of floral phenotype is an important part of the process of gender specialization during the evolution of dioecy from hermaphroditism. However, we have little information on the genetic variation of floral traits in species with separate genders. Gynodioecious species (co-occurrence of females and hermaphrodites) have a breeding system intermediate between hermaphroditism and complete separation of the sexes (dioecy) and thus can provide insight into the genetic architecture underlying floral phenotype with respect to both primary (stamens and carpels) and secondary (petals) sexual traits. I used a nested breeding design to examine the potential for response to selection on floral traits and to examine whether this response would be similar in the two sex morphs of gynodioecious Fragaria virginiana. There was significant genetic variation underlying all floral traits, although narrow-sense heritabilities (ranging from −0.25 to 0.44) were, in most cases, much lower than broad-sense ones (ranging from 0.28 to 1.53). Moreover, the sex morphs differed significantly in their heritabilities for shared traits, such as stamen length, and showed a tendency towards differing significantly in others, like carpel number and petal length. In addition, correlations between the sex morphs for these traits (ranging from 0.41 to 0.58) were significantly greater than 0, but less than 1. These results indicate that greater sexual dimorphism could evolve in this population of F. virginiana, even if selection on these traits is not divergent. However, strong developmental integration of floral traits (e.g. stamen length and petal length) and high levels of nonadditive genetic variance may represent barriers to the evolution of complete sexual dimorphism.
Aggregating lane markings into lanes for intersection assistance

Driver assistance functions on marked innercity intersections require a reliable detection of intersection lanes. Due to the high complexity of intersection scenarios and the large amount of clutter that is usually encountered in urban areas, existing highway lane detectors are not applicable for this task. In order to detect the lanes on marked innercity intersections, we adopt a two step process of first detecting individual lane marking segments and then aggregating these segments to appropriate lanes. We assume that a lane detector for innercity scenarios should be capable of handling lanes with arbitrary orientation and curvature and thus may not rely on simple geometric models. In order to achieve this, in the paper we first derive a set of features from the lane marking segment data. These features are fed into a support vector machine. The support vector machine determines whether the lane marking segments belong to the same lane or not.
Effects of amiloride on potassium and calcium currents in guinea pig ventricular myocytes.

AIM To elucidate the possible mechanisms underlying antiarrhythmia of the non-selective Na+/H+ exchanger inhibitor--amiloride. METHODS Single ventricular cells were isolated using a double-enzyme method. Effects of amiloride on voltage-dependent potassium and calcium currents in isolated guinea pig ventricular myocyte were recorded by using whole-cell patch clamp techniques. RESULTS Exposure to amiloride (10 -100 micromol x L(-1)), the L-type and T-type calcium currents were depressed. Amiloride resulted in a concentration-dependent inhibition of peak (Ca,L), But amiloride did not change the shape of their I - V curves. It only decreased the amplitudes of the currents of the two types. When myocytes were incubated with 100 micromol x L(-1) amiloride, I(Kr) was slightly depressed and I(Ks) did not change. Amiloride (1 - 100 micromol x L(-10) depressed I(K1) in a concentration-dependent manner. CONCLUSION Amiloride depressed potassium and calcium currents, which may give support to its uses in some diseases of the cardiovascular system.
Novel Cryptosporidium Genotypes in Sporadic Cryptosporidiosis Cases: First Report of Human Infections with a Cervine Genotype

In this study, we genotyped parasites from the fecal specimens of sporadic cryptosporidiosis cases in British Columbia from 1995 to 1999. Genotyping was conducted by polymerase chain amplification of the internal transcribed spacer region, a hypervariable region in the 18S rRNA gene and the Cryptosporidium oocyst wall protein gene. Subsequent analysis was by restriction fragment length polymorphism and DNA sequencing. We identified two new Cryptosporidium genotypes in humans. One of these genotypes has been found recently in deer in New York state. The other genotype has not been identified in humans or animals. These results have important implications for drinking water quality strategies, especially for communities that obtain drinking water supplies from surface sources located in forested regions with deer populations.
Influence of different supine body positions on blood pressure: consequences for night blood pressure/dipper‐ status

Objectives To investigate the influence of different supine body positions on blood pressure measured by an ambulatory device. Design and methods Twenty hypertensive and 20 normotensive subjects of a tertiary hospital outpatient clinic participated. Blood pressure was measured with an ambulatory blood pressure device while lying in the back, left side, right side and abdominal positions. The distance between the antecubital fossa and sternum was measured in all four body positions. An expected blood pressure difference between the arm of measurement and the right atrium (i.e. the midsternum) was calculated for the different body positions. Results When blood pressure was measured in side position at the left arm in hypertensive subjects, the mean systolic and diastolic blood pressure differences (± SD) between the left arm in the lower position and in back position at the same arm were +5/+4 (8/6) mmHg. These differences were −14/−17 (6/4) mmHg for the left arm lying above heart level in side position. Values of the right arm in hypertensives and the measurement at both arms in normotensive subjects yielded similar differences. Conclusions Body and arm position can both significantly influence the ambulatory blood pressure and therefore the day-night difference. This comprises one of the main reasons for the moderate individual reproducibility of the blood pressure fall at night.
High-Resolution Mapping and Dynamics of the Transcriptome, Transcription Factors, and Transcription Co-Factor Networks in Classically and Alternatively Activated Macrophages

Macrophages are the prime innate immune cells of the inflammatory response, and the combination of multiple signaling inputs derived from the recognition of host factors [e.g., interferon-g (IFN-γ)] and invading pathogen products (e.g., toll-like receptors (TLRs) agonists) are required to maintain essential macrophage function. The profound effects on biological outcomes of inflammation associated with IFN-γ pretreatment (“priming”) and TLR4 ligand bacterial lipopolysaccharide (LPS)-induced macrophage activation (M1 or classical activation) have long been recognized, but the underlying mechanisms are not well defined. Therefore, we analyzed gene expression profiles of macrophages and identified genes, transcription factors (TFs), and transcription co-factors (TcoFs) that are uniquely or highly expressed in IFN-γ-mediated TLR4 ligand LPS-inducible versus only TLR4 ligand LPS-inducible primary macrophages. This macrophage gene expression has not been observed in macrophage cell lines. We also showed that interleukin (IL)-4 and IL-13 (M2 or alternative activation) elicited the induction of a distinct subset of genes related to M2 macrophage polarization. Importantly, this macrophage gene expression was also associated with promoter conservation. In particular, our approach revealed novel roles for the TFs and TcoFs in response to inflammation. We believe that the systematic approach presented herein is an important framework to better understand the transcriptional machinery of different macrophage subtypes.