Miracle-dz/UniFAR-FTUs huggingface dataset:
Supplementing With Vitamin C the Diet of Honey Bees Parasitized With Varroa destructor: Effect on Carbohydrate Metabolism

The most profound decrease in the number of honey bee (Apis mellifera carnica) colonies is observed after winter. This study evaluates the effect of vitamin C (ascorbic acid, AA) supplementation in wintering colonies of honey bees naturally infested with the parasitic mite Varroa destructor on total carbohydrate content, glycogen, trehalose, glucose and fructose concentrations, and the activity of amylase and disaccharidases in a developing worker brood. The severity of the infestation was lower (1.18±0.6 of mites per bee) in bees whose diet were supplemented with vitamin C (group AA) than in the control group (C) (1.32±0.56 mites/bee). Glycogen and trehalose levels and the activity of α-amylase, glucoamylase and trehalase were significantly higher in newly emerged workers from group AA. The results of the study indicate that vitamin C in the diet of honey bees moderately reduces infestation levels and might improve selected indicators of carbohydrate metabolism in infested workers and thus improves the condition of apiaries.
An Evaluation of the Phytochemical and NutritionalCompositions of Fresh Leaves of Cnidoscolus Aconitifolius[Miller] I.M.Johnston

Fresh leaves of Cnidoscolus aconitifolius [Miller] I. M. Johnston were analysed for phytochemical and proximate compositions, vitamin and mineral constituents. The phytochemical screening carried out on the fresh leaves revealed the presence of the bioactive compounds; Saponin 3,900mg/100g, Flavonoid 1200mg/100g, Alkaloid 490mg/100g, Tannins 236mg/100g, Oxalate 873mg/100g, Phenol 11.6mg/100g, Anthraquniones 59mg/100g, Cyanogenic glycoside 24mg/100g and Phlobotannins 67mg/100g. The proximate analysis showed that the fresh leaves contained 1.80% crude fat, 2.50% crude fibre, 5.11% crude protein, 6.54% carbohydrate, 1.60% ash and 82.45% moisture content. The result of the vitamin analysis depicted/revealed that the fresh leaves contained carotene (Vit A) 131.10mg/100g, Ascorbic acid (Vit C) 142.11mg/100g, Pyridoxine (Vit B6) 1.34mg/100g, Folic acid (Vit B9) 1.13mg/100g and Cyanocobalamin (Vit B12) 0.13mg/100g. The mineral analysis revealed the constituents to be Mg 23mg/100g, K 102mg/100g, Ca 30.9mg/100g, P 22mg/100g, Fe 4.7mg/100g, Cu 0.5mg/100g, Mn 3.2mg/100g, Zn 0.3mg/100g, and Na 21mg/100g. These results show that Cnidoscolus aconitifolius is a nutritious green vegetable which can serve as a food supplement and as a medicinal plant. Keyword: Cnidoscolus aconitifolius, phytochemical screening, proximate analysis, mineral and vitamin constituents, nutritional composition, bioactive compounds.
Adaptation of Camelina sativa (L.) Crantz in Assam, India: agronomic, physiological and biochemical aspects of a potential biofuel feedstock

Abstract Camelina sativa (L.) Crantz (family Brassicaceae) or false flax, a new oilseed plant for biodiesel and jet fuel production, has been cultivated for centuries in the temperate climate belt of Europe, as an annual summer or winter crop. Camelina is gaining popularity because of its low input requirements and its possibility of being used as a low greenhouse gas emission biofuel crop. Consecutive agronomic trials were carried out in northeast India (Assam), which is characterized by a sub-tropical climate. Three genotypes were used for the study. Comparisons at agronomic, physiological and biochemical levels were carried out. Results demonstrate that Camelina could grow and produce seeds in northeast India only during the winter season (October to March) when precipitation was absent, and the temperature was comparable to that of the temperate European belt in spring–summer. The oil quality and quantities showed small changes and remain in a suitable range for biofuel production. We infer that Camelina sativa has a high level of plasticity and ability to adapt in an area outside of its original habitat and can be cultivated in winter, as a second crop, in northeast India to provide a valuable feedstock for biofuel producers.
DeePaC: Predicting pathogenic potential of novel DNA with reverse-complement neural networks

Motivation We expect novel pathogens to arise due to their fast-paced evolution, and new species to be discovered thanks to advances in DNA sequencing and metagenomics. Moreover, recent developments in synthetic biology raise concerns that some strains of bacteria could be modified for malicious purposes. Traditional approaches to open-view pathogen detection depend on databases of known organisms, which limits their performance on unknown, unrecognized, and unmapped sequences. In contrast, machine learning methods can infer pathogenic phenotypes from single NGS reads, even though the biological context is unavailable. Results We present DeePaC, a Deep Learning Approach to Pathogenicity Classification. It includes a flexible framework allowing easy evaluation of neural architectures with reverse-complement parameter sharing. We show that convolutional neural networks and LSTMs outperform the state-of-the-art based on both sequence homology and machine learning. Combining a deep learning approach with integrating the predictions for both mates in a read pair results in cutting the error rate almost in half in comparison to the previous state-of-the-art. Availability The code and the models are available at: https://gitlab.com/rki_bioinformatics/DeePaC Contact RenardB@rki.de Supplementary information Supplementary data are available at Bioinformatics online.
Molecular characterisation and biological control of Aspergillus flavus isolates from Saudi Arabia

Abstract Aspergillus flavus is a phytopathogenic fungus that produces toxic compounds, aflatoxins, in infected plant tissues which harm human and animal health. In this study, 57 food/feed products were collected from 9 locations in Aseer, KSA. A total of 93 isolates were recovered from the samples and were identified as Aspergillus spp. based on their cultural and microscopic characteristics. Six isolates (Af3, Af23, Af24, Af26, Af45 and Af48) were selected and confirmed as A. flavus using polymerase chain reaction (PCR), sequencing of ITS1-5.8s-ITS2 rDNA region and phylogenetic analyses. The six sequences were deposited in the GenBank under the accession numbers of KU561932, KU561934, KU561935, KU561936, KU561937 and KU561938, respectively. Random amplification of polymorphic DNA (RAPD-PCR) of the six isolates using five primers (OPA-2, OPA-3, OPA-9, OPA-11 and OPA-15), produced polymorphic DNA bands of 12, 36, 25, 1 and 1, respectively. The band sizes ranged from 130 to 1600 bp, whereas no monomorphic bands were observed. The bio-control of the six selected A. flavus isolates using three locally isolated yeasts (Candida davisiana, Rhodotorula graminis and Exophiala dermatitidis) was assessed. On solid media, the three yeast strains inhibited all tested A. flavus isolates. The most effective yeast strain was R. graminis. In liquid media, both yeast strains C. davisiana and R. graminis inhibited the dry weights of the six A. flavus isolates. Bio-control approaches of A. flavus could help controlling the pathogen, ultimately, reduce the risk of aflatoxins in human and animal supplies and reduce the use of chemicals that affect the environment and health.
The kinesin-like protein Pavarotti functions noncanonically to regulate actin dynamics

Pavarotti, the Drosophila MKLP1 ortholog, is a kinesin-like protein that with Tumbleweed (MgcRacGAP) works together as the centralspindlin complex. This complex is essential for cytokinesis where it helps to organize the contractile actomyosin ring at the equator of dividing cells by activating the RhoGEF Pebble. Actomyosin rings also function as the driving force during cell wound repair. We previously showed that Tumbleweed and Pebble are required for the cell wound repair process. Here, we show that Pavarotti also functions during wound repair and confirm that while Pavarotti, Tumbleweed, and Pebble are utilized during this cellular repair, it is not as the conserved centralspindlin complex. Surprisingly, in vitro and in vivo work show that the classically microtubule-associated Pavarotti binds directly to actin and has a non-canonical role directly regulating actin dynamics. We show that Pavarotti also works independently from Tumbleweed in several actin-related processes during the normal developmental process of oogenesis.
Long-term prognostic value of the combined assessment of clinical and computed tomography findings in type

Abstract Type A acute aortic dissection (TAAAD) carries a high mortality rate in the absence of surgical treatment. This study sought to determine whether combining the assessment of clinical and computed tomography (CT) findings can be used to predict the long-term all-cause mortality rate of patients with TAAAD. Eighty-five consecutive patients with TAAAD who had undergone CT imaging and surgery were retrospectively reviewed. For the clinical and CT findings, univariate testing followed by multivariate logistic regression analysis was conducted to identify independent predictors of death. Then, the area under the receiver operating characteristic curve of the combined prediction model was calculated. The long-term mortality rate was 34.1% in our cohort (a median follow-up period of 60 months). Multivariate logistic regression analysis identified the following presenting variables as predictors of death: male sex (odds ratio [OR]: 6.67; 95% confidence interval [CI]: 1.67–25.0; P = .007), kidney malperfusion (OR: 2.18; 95% CI: 1.16–4.1; P = .02), and descending aorta size (OR: 1.12; 95% CI: 1.00–1.25; P = .05). Receiver operating characteristic curve analysis revealed an area under the receiver operating characteristic curve of 0.84 when using the combined model for prediction of long-term all-cause mortality (P ≤ .01). The combined assessment of clinical and CT findings can reasonably predict the long-term prognosis of TAAAD with surgery.
Knowledge and use of complementary therapies in a tertiary care hospital in France

Supplemental Digital Content is available in the text Abstract Few studies have clarified the use of complementary therapies (CTs) in France. The main objective of this preliminary study was to evaluate knowledge of CTs in 4 representative groups of patients: patients suffering from cancer, patients presenting with a chronic noncancerous disease, chronic dialysis patients and nonchronic or cancerous patients needing surgery. A formalized questionnaire was designed by 2 psychologists, an oncologist and an anesthesiologist in charge of the Pain Clinic and Support Care Unit. One-hundred eleven patients were enrolled, and all agreed to complete the questionnaire. Eighty (72%) patients did not know the term “complementary therapies” (patients who were “not aware of CTs”), and 24 (21.6%) patients knew the term “complementary therapies” (patients who were “aware of CTs”), while 7 patients were not sure of the meaning. There were no differences between aware and unaware patients in gender (P = .27), age (P = .24), level of education (p = 0.24) or professional occupation (P = .06). Knowledge about CTs was significantly different among the different categories of patients (P = .03), with the only statistically significant difference between groups being between oncologic patients receiving ambulatory chemotherapy and patients presenting with a chronic noncancerous disease (P = .004). This preliminary study clearly highlights that patients and health caregivers are not aware of CTs and that there is a need for better communication about CTs.
Sleep disturbance and delirium in patients with acromegaly in the early postoperative period after transsphenoidal pituitary surgery

Abstract Sleep disturbance is a common comorbidity among patients with acromegaly [patients with growth hormone (GH)-secreting tumor] due to somatotropic axis change and sleep apnea. However, no previous studies exist concerning sleep disturbance and delirium in the early postoperative period in patients with acromegaly undergoing transsphenoidal tumor surgery. Herein, we aimed to compare the incidence of postoperative sleep disturbance and delirium in the early postoperative period between patients with GH-secreting and nonfunctioning pituitary tumors. We retrospectively reviewed the medical records of 1286 patients (969 with nonfunctioning and 317 with GH-secreting tumors) without history of psychological disease and sedative or antipsychotic use. We examined the use of antipsychotics/sedatives and findings of psychology consultation within the first postoperative week. Only patients with sleep disturbance noted in medical records were considered to have postoperative sleep disturbance. Patients with an Intensive Care Delirium Screening Checklist score of 4 or more were considered to have postoperative delirium. The incidence of postoperative sleep disturbance was higher in the GH-secreting group than in the nonfunctioning tumor group (2/969 [0.2%] vs 6/317 [1.9%]; P = .004; odds ratio = 9.328 [95% confidence interval, 1.873–46.452]). Univariable regression analysis showed that only diagnosis (GH-secreting tumor or nonfunctioning tumor) was a risk factor for sleep disturbance, and not sex, age, body mass index, American Society of Anesthesiologists physical status score, surgery duration, anesthesia duration, anesthesia type, tumor size, cavernous sinus invasion, or bleeding. The incidence of postoperative delirium was comparable between the 2 groups (6/969 [0.6%] vs 0/317 [0%]; P = .346). Patients with acromegaly showed increased incidence of sleep disturbance than those with nonfunctioning tumors in the early postoperative period after transsphenoidal tumor surgery. A prospective study evaluating sleep quality in patients with GH-secreting tumors in the early postoperative period could be conducted based on our findings.
Prognostic significance of PD-L1 in advanced non-small cell lung carcinoma

Abstract This study aimed to investigate the prognostic value of PD-L1 in Chinese patients with non-small cell lung carcinoma (NSCLC). In this retrospective study, 97 patients with NSCLC were consecutively recruited. The expression profiling of PD-1, PD-L1, p53 and Ki-67 was detected by immunohistochemistry. Median survival time was estimated by Kaplan–Meier survival curve with log-rank test. Risk factors were evaluated by Cox Proportional Hazards regression models. The median tumor size was larger (3.5 cm) among patients with positive PD-L1 expression, compared to those with negative expression (2.0 cm; P < .01). Compared to those with negative PD-L1 expression, patients with positive PD-L1 expression had significantly higher rates of nerve invasion (26.3% vs 5.0%; P < .01), blood vessel invasion (47.4% vs 20.0%; P < .01) and lymph node metastasis (64.9% vs 27.5%; P < .01), more advanced tumor stage (P < .01) and Ki-67 index (P < .01). PD-L1 expression status was not significantly associated with disease-free (DFS) or overall survival (OS). However, for patients with advanced disease, PD-L1 positive expression was related to worse outcome (HR: 4.13; 95% CI: 1.06–16.12). Positive PD-L1 expression is associated with more aggressive pathological features and poorer prognosis in advanced stage NSCLC.
PRESCRIBING TREND AND DRUG COST ANALYSIS OF ORAL HYPOGLYCEMIC AGENTS USING DRUG UTILISATION REVIEW

Drug utilization of oral hypoglycemic agents (OHAs) in a private healthcare setting is useful to examine the prescribing pattern of OHAs, especially the newer fixed dose combination (FDC) products. This study was aimed to evaluate the prescribing pattern of OHAs indicated for Type 2 diabetes mellitus (T2DM), to determine the costs of OHAs prescribed and total cost per prescription in the treatment of T2DM in an outpatient department of a private hospital located in central Malaysia. Retrospective review of electronic medical record (EMR) study design was adopted. Patient’s demographic characteristics, medications prescribed, prescribers’ details and cost per prescription were documented. Defined daily dose (DDD) of OHAs and drug cost were calculated. Research ethics protocol was approved and no personal data was collected. Out of the 396 EMR screened, 135 fulfilled the inclusion criteria and subsequently were analysed. In term of demography, mean age of the sample was 51 years old with 59% were male and ethnicity composition of 71% Malay and 19% Chinese. Metformin and “metformin+dipeptidyl peptidase-4 inhibitor” (DPP-4i) were the most commonly prescribed single-drug and FDC OHA, respectively. Average cost of OHAs and total cost per prescription was less than USD 68 and USD 185, respectively. Meanwhile, FDC covered 28.91% of incidences of prescriptions, but 44.6% of cost and SGTL-2i covered 9% incidences of prescriptions and 16.29% of cost. Prescribing pattern of OHA was appropriate based on patient’s T2DM diagnosis, however, dosage given were not in accordance with WHO DDD.
TaleNeprilysin and Neprilysin inhibition in chronic kidney disease

Supplemental Digital Content is available in the text Purpose of review Chronic kidney disease (CKD) is associated with increased risk of progression to end-stage kidney disease and cardiovascular events. There is limited evidence that available treatments have beneficial effects on cardiorenal outcomes in all people with nondiabetic CKD. Neprilysin inhibition (NEPi) is a new therapeutic strategy with potential to improve outcomes for patients with CKD. Recent findings NEPi enhances the activity of the natriuretic peptide system producing natriuresis, diuresis and inhibition of the renin–angiotensin system and sympathetic nervous system. Sacubitril/valsartan is the first Angiotensin receptor-neprilysin inhibitor (ARNI) to be produced and has been shown to substantially improve cardiovascular outcomes in heart failure and delay progression of kidney disease in this population. Although ARNIs have not shown similar effects on kidney function in the short-to-medium term in people with CKD, they are associated with substantial reductions in cardiac biomarkers and blood pressure in CKD. Summary These data suggest that NEPi with an ARNI could benefit patients with CKD by reducing the risk of cardiovascular disease and have the possibility of retarding the progression of CKD (hence delaying the need for renal replacement therapy).
Evaluating Classical Force Fields against Experimental Cross-Solvation Free Energies.

Experimental solvation free energies are nowadays commonly included as target properties in the validation and sometimes even in the calibration of condensed-phase force fields. However, this is often done in a nonsystematic fashion, by considering available solvation free energies involving an arbitrary collection of solutes in a limited set of solvents (e.g., water, octanol, chloroform, cyclohexane, or hexane). Here, this approach is made more systematic by introducing the concept of cross-solvation free energies ΔsGA:B⊖ for a set of N molecules that are all in the liquid state under ambient conditions, namely the matrix of N2 entries for ΔsGA:B⊖ considering each of the N molecules either as a solute (A) or as a solvent (B). Relying on available experimental literature followed by careful data curation, a complete ΔsGA:B⊖ matrix of 625 entries is constructed for 25 molecules with one to seven carbon atoms representative for alkanes, chloroalkanes, ethers, ketones, esters, alcohols, amines, and amides. This matrix is then used to compare the relative accuracies of four popular condensed-phase force fields: GROMOS-2016H66, OPLS-AA, AMBER-GAFF, and CHARMM-CGenFF. In broad terms, and in spite of very different force-field functional-form choices and parametrization strategies, the four force fields are found to perform similarly well. Relative to the experimental values, the root-mean-square errors range between 2.9 and 4.0 kJ·mol-1 (lowest value of 2.9 for GROMOS and OPLS), and the average errors range between -0.8 and +1.0 kJ·mol-1 (lowest magnitude of 0.2 for AMBER and CHARMM). These differences are statistically significant but not very pronounced, especially considering the influence of outliers, some of which possibly caused by inaccurate experimental data.
The Effect of Replacing Wildrye Hay with Mulberry Leaves on the Growth Performance, Blood Metabolites, and Carcass Characteristics of Sheep

Simple Summary It is well known that mulberry leaves can be used in animal feed because of their high yield, rich protein content, and palatability. Our study found that partially replacing Chinese wildrye with mulberry leaves could improve meat quality without negatively affecting the growth performance, blood metabolites, and carcass characteristics of sheep. The study suggests that mulberry leaves partially substituted for conventional forage in the diet of sheep may be an effective strategy to alleviate the shortage of high-quality forage sources and to reduce feed costs. Abstract The objective of this study was to evaluate the effects of partially substituting for conventional forage, Chinese wildrye (CW), with mulberry leaves (ML) on the growth, digestion, ruminal fermentation, blood metabolites, and meat quality of sheep in a 65-day feedlot study. Thirty-two four-month-old male small-tailed Han sheep (25.15 ± 1.03 kg) were randomly assigned to one of four treatments. The dietary treatments consisted of four proportions of ML (0, 8, 24, and 32%) as a substitute for CW (designated as ML0, ML8, ML24, and ML32, respectively). Rumen digesta and blood samples were collected at day 63 of the trial. Carcass traits were assessed after slaughter at the end of performance period. The results from this study revealed no differences in average daily bodyweight gain (ADG), feed conversion ratio (FCR), and final body weight (FBW) among treatments. The apparent digestibility of dry matter (DM), organic matter (OM), and acid detergent fiber (ADF) was higher in the sheep fed with ML than in those fed CW. The ML24 treatment had a higher digestibility of crude protein (CP) and ether extract (EE). There were no differences (p = 0.13) in ruminal pH values among the treatments. However, there was more microbial protein (p < 0.01) in ML24 and ML32 treatments than the ML0 treatment. Ruminal concentrations of acetate and butyrate were significantly different among treatments, although no difference in concentrations of total volatile fatty acid were found. Additionally, no differences were detected for serum parameters except blood urea nitrogen (BUN). No differences were observed for carcass weight (p = 0.62), dressing percentage (p = 0.31) or longissimus dorsi muscle (LM) area (p = 0.94) among treatments. However, intramuscular fat was higher in the ML24 treatment than in the ML0 treatment. (p < 0.01). There were higher pH values of the 24-h longissimus dorsi in the ML24 treatment than in the ML0 treatment. In addition, the saturated fatty acid (SFA) content was lower (p < 0.01) and the monounsaturated fatty acid (MUFA) content higher (p < 0.01) in the ML24 treatment than in the ML0 treatment. In conclusion, the partially substitution of mulberry leaves for Chinese wildrye in the diet of sheep had a beneficial influence on the growth performance, blood metabolites and carcass characteristics. The inclusion of 24% (air dry basis) mulberry leaf hay in the ration of sheep is recommended based on these findings.