Miracle-dz/UniFAR-FTUs huggingface dataset:
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate

Significance We demonstrate that grape-associated microbial biogeography is nonrandomly associated with regional, varietal, and climatic factors across multiscale viticultural zones. This poses a paradigm shift in our understanding of food and agricultural systems beyond grape and wine production, wherein patterning of whole microbial communities associated with agricultural products may associate with downstream quality characteristics. Elucidating the relationship between production region, climate, and microbial patterns may enhance biological control within these systems, improving the supply, consumer acceptance, and economic value of important agricultural commodities. Wine grapes present a unique biogeography model, wherein microbial biodiversity patterns across viticultural zones not only answer questions of dispersal and community maintenance, they are also an inherent component of the quality, consumer acceptance, and economic appreciation of a culturally important food product. On their journey from the vineyard to the wine bottle, grapes are transformed to wine through microbial activity, with indisputable consequences for wine quality parameters. Wine grapes harbor a wide range of microbes originating from the surrounding environment, many of which are recognized for their role in grapevine health and wine quality. However, determinants of regional wine characteristics have not been identified, but are frequently assumed to stem from viticultural or geological factors alone. This study used a high-throughput, short-amplicon sequencing approach to demonstrate that regional, site-specific, and grape-variety factors shape the fungal and bacterial consortia inhabiting wine-grape surfaces. Furthermore, these microbial assemblages are correlated to specific climatic features, suggesting a link between vineyard environmental conditions and microbial inhabitation patterns. Taken together, these factors shape the unique microbial inputs to regional wine fermentations, posing the existence of nonrandom “microbial terroir” as a determining factor in regional variation among wine grapes.
A Survey of the Antibacterial Activity of Some New Zealand Honeys

Abstract— To assess the variation in antibacterial activity of honey a survey was carried out on 345 samples of unpasteurized honey obtained from commercial apiarists throughout New Zealand. Most of the honeys were considered to be monofloral, from 26 different floral sources. The honeys were tested against Staphylococcus aureus in an agar well diffusion assay, with reference to phenol as a standard. Antibacterial activity was found to range from the equivalent of < 2% (w/v) phenol to 58% (w/v) phenol, with a median of 13·6 and a standard deviation of 12·5. Neither the age of the honey samples nor whether they had been processed by the apiarist was associated with lower activity. However, the difference between floral sources in the antibacterial activity was very highly significant. Kanuka (Kunzea ericoides (A. Rich.) J. Thompson. Family: Myrtaceae), manuka (Leptospermum scoparium J. R. et G. Forst. Family: Myrtaceae), ling heather (Calluna vulgaris (L.) Hull. Family: Ericaceae) and kamahi (Weinmannia racemosa Linn. f. Family: Cunoniaceae) were shown to be sources likely to give honey with high antibacterial activity. When antibacterial activity was assayed with catalase added to remove hydrogen peroxide, most of the honeys showed no detectable antibacterial activity. Only manuka and vipers bugloss (Echium vulgare L. Family: Boraginaceae) honeys showed this type of activity in a significant proportion of the samples. The high antibacterial activity of manuka honey was in many cases due entirely to this non‐peroxide component.
EISENBERG supramolecular assemblies coil-V ( a ) L ( d ) : Implications for engineering crystals and The crystal structure of the designed trimeric coiled coil data

The three-dimensional structure of the 29-residue designed coiled coil having the amino acid sequence acetyl-E VEALEKK VAALESK VQALEKK VEALEHG-amide has been determined and refined to a crystallographic R-factor of 21.4% for all data from 10-8, to 2.1-8, resolution. This molecule is called coil-V,Ld because it contains valine in the a heptad positions and leucine in the d heptad positions. In the trigonal crystal, three molecules, related by a crystallographic threefold axis, form a parallel three-helix bundle. The bundles are stacked head-to-tail to form a continuous coiled coil along the c-direction of the crystal. The contacts among the three helices within the coiled coil are mainly hydrophobic: four layers of valine residues alternate with four layers of leucine residues to form the core of the bundle. In contrast, mostly hydrophilic contacts mediate the interaction between trimers: here a total of two direct proteinprotein hydrogen bonds are found. Based on the structure, we propose a scheme for designing crystals of peptides containing continuous two-, three-, and four-stranded coiled coils.
Influence of Diet on the Rumen Protozoal Fauna of Indigenous African Wild Ruminants

Abstract A study was carried out to determine if the protozoal fauna of indigenous African wild ruminants was different from that found in their domestic counterparts and if the animal's diet influenced the number and types of protozoa. Samples of rumen contents were collected in 1997 and 2001 from various indigenous African wild ruminants in Kenya. All three ruminant feeding types were sampled: browsers or concentrate selectors (giraffe and Guenther's dik-dik); intermediate or adaptable mixed feeders (impala, Thomson's gazelle, Grant's gazelle and eland); grass or roughage eaters (hartebeest and wildebeest). Total concentration of ciliate protozoa and percentage generic distribution were determined. In general, protozoal concentrations were higher in concentrate selectors, followed by the intermediate or opportunistic mixed feeders and lowest in the grass and roughage eaters. Both Thomson's and Grant's gazelle were protozoa-free in the 2001 samples. Entodinium percentages were considerably higher in concentrate selectors and intermediate mixed feeders, compared to roughage eaters. Two genera of protozoa previously found in only a few African ruminants, Epiplastron and Opisthotrichum, were observed in several additional animal species and represent new host records. A difference was noted in the protozoal species composition of the indigenous wild ruminants from that previously observed in African domestic ruminants.
On the maximum volume of collapsing structures

In many cosmological models, including the ΛCDM concordance model, there exist theoretical upper bounds on the size of collapsing structures. The most common formulations in the literature refer to a turnaround radius in spherical symmetry or a turnaround surface, defined as the zero-expansion boundary separating the outer Hubble flow from the inner flow of a collapsing fluid. In order to access a generic scenario, we propose an improvement of this cosmological test in terms of the maximum volume of the cosmological structures, which is equivalent to a zero-averaged expansion — instead of the zero-local expansion. By combining the Lagrangian perturbations method and the scalar averaging of Einstein's equations, we obtain a maximum volume for a collapse model without any restricting symmetries. We compare this result with some exact, inhomogeneous solutions and discuss further potential developments.
Analysis of CYP27B1, Encoding 25‐Hydroxyvitamin D‐1α‐Hydroxylase, as a Candidate Tumor Suppressor Gene in Primary and Severe Secondary/Tertiary Hyperparathyroidism

CYP27B1, encoding 25‐hydroxyvitamin D‐1α‐hydroxylase, converts 25‐hydroxyvitamin D to its active form, 1,25‐dihydroxyvitamin D, and is expressed primarily in the kidney but also in nontraditional sites including the parathyroid glands. Whereas the role of locally produced 1,25‐dihydroxyvitamin D is not yet clear, it is possible that it contributes importantly to vitamin D–mediated inhibition of parathyroid cell growth, so CYP27B1 can be considered a candidate parathyroid tumor suppressor gene in that its acquired inactivation in a parathyroid cell could confer a tumorigenic growth advantage. Expression of CYP27B1 has also been reported to be altered in parathyroid neoplasms. Because detection of inactivating mutations is the central criterion for validating a candidate tumor suppressor, we directly sequenced the coding region and all splice sites of CYP27B1 in 31 sporadic parathyroid adenomas and 31 parathyroid tumors from patients with refractory secondary/tertiary hyperparathyroidism. No nonsense, frameshift, or other inactivating mutations were found, and there was no sign of homozygous deletion. Our findings indicate that CYP27B1 does not commonly serve as a classical tumor suppressor gene in the development of sporadic parathyroid adenomas or of refractory secondary/tertiary hyperparathyroidism.
Supervisory attentional control following carbon monoxide poisoning

This study tested the hypothesis that carbon monoxide poisoning would produce a deficit of attentional control, the supervisory attention system, as indexed by attention switching and attentional scheduling, and that routine attentional orienting would be unaffected. Seventy-three cases of carbon monoxide poisoning were assessed at 3 days and 1 month post poisoning on tasks of attentional orienting, and tasks of the supervisory attention system. The results were compared to a group of 53 healthy community participants. A deficit of the supervisory attentional system was documented on a task of attention switching in survivors of both deliberate and accidental CO poisoning, leaving attentional scheduling intact. There was no deficit of attentional orienting in the current study. Alteration of consciousness was found to predict subsequent supervisory attention system impairment in correlation analyses, and the deficit was persistent for a 1 month follow-up period. (JINS, 2004, 10, 843–850.)
Off-hours admission and quality of hip fracture care: a nationwide cohort study of performance measures and 30-day mortality.

OBJECTIVE Higher risks of adverse outcomes have been reported for patients admitted acutely during off-hours. However, in relation to hip fracture, the evidence is inconsistent. We examined whether time of admission influenced compliance with performance measures, surgical delay and 30-day mortality in patients with hip fracture. DESIGN Cohort study. SETTING Data from The Danish Multidisciplinary Hip Fracture Registry linked with data from Danish National Registries. PARTICIPANTS Danish patients undergoing hip fracture surgery, aged >65 years, admitted 1 March 2010 to 30 November 2013 (N = 25 305). EXPOSURE Off-hours: weekday evenings and nights, and weekends. MAIN OUTCOME MEASURES Meeting specific performance measures, surgical delay and mortality. RESULTS No differences were found in patient characteristics or in meeting performance measures (RRs from 0.99 [95% CI: 0.98-1.01] to 1.01 [95% CI: 0.99-1.02]. When comparing admission on weekdays (evenings and nights vs. days), off-hours admission was associated with a lower risk of surgical delay (adjusted OR 0.75 [95% CI: 0.66-0.85]) while no differences in 30-day mortality was found (adjusted OR 0.91 [95% CI: 0.80-1.04]. When comparing admission during weekends with admission during weekdays, off-hours admission was associated with a higher risk of surgical delay (adjusted OR 1.19 [95% CI: 1.05-1.37]) and a higher 30-day mortality risk (adjusted OR 1.13 [95% CI: 1.04-1.23]. The risk of surgical delay appeared not to explain the excess 30-day mortality. CONCLUSIONS Patients admitted off-hours and on-hours received similar quality of care. The risk of surgical delay and 30 days mortality was higher among patients admitted during weekends; explanations need to be clarified.
Cardioprotective Medication Use After Acute Myocardial Infarction in Kidney Transplant Recipients

Background. Limited data are available on the use of potentially cardioprotective medications among U.S. kidney transplant recipients. Methods. We constructed a database wherein Organ Procurement and Transplant Network identifiers for kidney transplant recipients were linked to billing records of a private health insurer (2003–2006 claims). Transplant recipients and general beneficiaries with acute myocardial infarction (AMI) events were identified by diagnosis codes. The healthcare process measures of interest comprised prescription fills for beta-blockers, antiplatelet drugs, angiotensin-converting enzyme inhibitors/angiotensin-2 receptor blockers, and &bgr;-hydroxy-&bgr;-methylglutaryl coenzyme A (HMG CoA) reductase inhibitors (statins) within 60 days after AMI. Medication use was compared in transplant and general patients by multivariable regression and by one-to-one matching for demographic and clinical factors including comorbidities and revascularization status. Results. We identified 192 kidney transplant recipients and 52,021 general patients who survived with insurance benefits more than or equal to 60 days after AMI diagnosis. In multiple logistic regression, transplant status was independently associated with increased likelihood of beta-blocker (adjusted odds ratio, 2.50; 95% confidence interval, 1.70–3.68; P<0.0001) and statin (adjusted odds ratio, 1.78; 95% confidence interval, 1.28–2.48; P=0.0006) use after AMI. Similarly kidney transplant recipients with AMI more commonly received beta-blockers (83.0% vs. 65.9%; P=0.0001) and statins (72.0% vs. 62.6%; P=0.04) compared with matched controls. Use of antiplatelet agents and angiotensin-converting enzyme inhibitors/angiotensin-2 receptor blockers did not differ significantly by transplant status. Conclusions. Although kidney transplant status does not seem to be a barrier to medication use after AMI, there may be opportunities for improving cardiovascular risk management in high-risk transplant recipients. Administrative records offer a practical tool for monitoring cardiovascular complications and healthcare delivery not tracked in national registries.
Screening Toxic Effects of Volatile Organic Compounds using Drosophila melanogaster

The suitability of Drosophila melanogaster for biological screening of the toxic effects of volatile organic compounds was investigated. Adult flies were exposed to vapours of some organic solvents and gasoline under saturating conditions in the sublethal range. In some cases the dose–response relationship was studied. As a measure of the overall metabolism, CO2 production was recorded before and after exposure, including the recovery period, and the body activity was scored and classified as “normal behaviour”, hyperactivity or excitement or narcosis.
Characterization of the human myeloid cell nuclear differentiation antigen: Relationship to interferon‐inducible proteins

The human myeloid cell nuclear differentiation antigen (MNDA) is expressed specifically in cells of the granulocyte/monocyte lineage. The MNDA has been isolated by using a monoclonal antibody affinity matrix and reversed‐phase high performance liquid chromatography. Its NH2‐terminal sequence has been obtained, as well as additional sequence information derived from peptides produced by cyanogen bromide and SV8 protease cleavages. Meaningful similarities were observed in extended regions between the MNDA and the reported β interferon‐inducible proteins, 202 and 204, from Ehrlich ascites mouse tumor cells. An amphipathic, basic α‐helical region, showing no similarity to the 202 and 204 proteins, exhibited close similarity to a region in the interferon response factor‐2, a protein which binds the interferon stimulated response element. The relatively high number of S(T)PXX motifs present in the partial amino acid sequence of the MNDA, described herein, suggests that the MNDA binds DNA and is a transcription factor.
Effect of time of day on the accuracy and consistency of the badminton serve

In badminton, the short doubles serve requires accuracy, whereas the long singles serve also requires power. The present study investigated if there are time-of-day effects for these two types of serve. Eight male badminton players completed two familiarization sessions before being tested at 08:00, 14:00 and 20:00 hours, the session times being counterbalanced. At each session, subjects performed ten warm-up serves, followed by ten short and ten long test serves. A 1 m2 yellow grid was placed at the front of the recipient's service box (short serve) or at the back of the court along the centre line (long serve). Subjects scored ‘hits’ with their serves by putting the shuttle in the grid as close as possible to one corner of the target grids. Accuracy was assessed by calculating the average radial error (RE) of the serves, and consistency by calculating the standard deviation of the RE. Data were analysed by ANOVA. There was a time of day effect for temperature (p < 0.0005) and a trend in this for grip strength (p = 0.052). The accuracy of the ‘hits’ was highest at 14:00 hours (p < 0.05) and the short serve showed greater accuracy than the long serve (p < 0.0005). There was a significant effect of serve number with the short serve, subjects getting more accurate with later serves (p = 0.036). No significant variation in consistency was found (p > 0.05). In summary, the lack of agreement in profiles for temperature and the accuracies of long and short service suggests that some factor(s) that deteriorate during the course of the time spent awake might be involved, in addition to body temperature, in determining accuracy in the tasks measured.
Effect of warfarin anticoagulation on survival in carcinoma of the lung, colon, head and neck, and prostate: Final Report of VA cooperative study # 75

VA Cooperative Study #75 was established to test in a controlled, randomized trial the hypothesis that warfarin anticoagulation would favorably affect the course of certain types of malignancy. No differences in survival were observed between warfarin‐treated and control groups for advanced non‐small cell lung, colorectal, head and neck and prostate cancers. However, warfarin therapy was associated with a significant prolongation in the time to first evidence of disease progression (P = 0.016) and a significant improvement in survival (P = 0.018) for patients with small cell carcinoma of the lung, including the subgroup of patients with disseminated disease at the time of randomization (P = 0.013). A trend toward improved survival with warfarin treatment was observed for the few patients admitted to this study with non‐small cell lung cancer who had minimal disease at randomization. These results suggest that warfarin, as a single anticoagulant agent, may favorably modify the course of some, but not all, types of human malignancy, among which is small cell carcinoma of the lung. Further trials of warfarin may be indicated in patients with limited disease who have cell types that failed to respond when advanced disease was present.
Longterm followup of childhood lupus nephritis.

OBJECTIVE To determine the longterm outcome in children with onset of lupus nephritis before 18 years of age. METHODS Sixty-seven patients with onset of lupus nephritis prior to age 18 were identified. The mean followup time was 11 years (range 5-19). The mean age at diagnosis was 13.2 years (range 4-17). The male:female ratio was 1:3.8. Renal biopsies were classified using the WHO classification. Fifteen patients had Class II, 8 patients Class III, 32 patients Class IV, and 11 patients Class V and one patient refused biopsy. The cohort consists of the 66 patients who had a renal biopsy. Five patients received cyclophosphamide (CYC) and 17 received azathioprine (AZA) as part of the initial treatment of Class IV nephritis. Eight additional patients received CYC because of a flare of disease while receiving AZA, and 8 other patients received AZA because of a flare of disease while taking prednisone therapy. RESULTS Four patients died; 6 developed endstage renal disease (ESRD); all but one of the patients who died and/or had ESRD had WHO Class IV [diffuse proliferative glomerulonephritis (DPGN)]; only 2 Caucasians developed ESRD, although 16 out of 36 Caucasians had DPGN; serum creatinine at followup was normal in 84% of the survivors; presently 70% of the patients take less than 7.5 mg prednisone/day and 62% do not take cytotoxic drugs. No patient is currently treated with CYC. All 8 patients with Class III nephritis were taking medication at last followup. CONCLUSION The longterm outcome in this group of children with lupus nephritis, in whom AZA was the most commonly used immunosuppressive agent, was excellent, with 94% patient survival at a mean followup of 11 years. Our results suggest that non-Caucasian patients with pediatric onset lupus nephritis may be at increased risk for renal failure compared to Caucasians.
High-Field Magnetic Resonance Imaging Assessment of Articular Cartilage before and after Marathon Running

Background There is continuing controversy whether long-distance running results in irreversible articular cartilage damage. New quantitative magnetic resonance imaging (MRI) techniques used at 3.0 T have been developed including T1rho (T1ρ) and T2 relaxation time measurements that detect early cartilage proteoglycan and collagen breakdown. Hypothesis Marathon runners will demonstrate T1ρ and T2 changes in articular cartilage on MRI after a marathon, which are not seen in nonrunners. These changes are reversible. Study Design Cohort study; Level of evidence, 2. Methods Ten asymptomatic marathon runners had 3-T knee MRI scans 2 weeks before, within 48 hours after, and 10 to 12 weeks after running a marathon. The T1ρ and T2 MRI sequences in runners were compared with those of 10 age- and gender-matched controls who had MRI performed at baseline and 10 to 12 weeks. Results Runners did not demonstrate any gross morphologic MRI changes after running a marathon. Postmarathon studies, however, revealed significantly higher T2 and T1ρ values in all articular cartilage areas of the knee (P < .01) except the lateral compartment. The T2 values recovered to baseline except in the medial femoral condyle after 3 months. Average T1ρ values increased after the marathon from 37.0 to 38.9 (P < .001) and remained increased at 3 months. Conclusion Runners showed elevated T1ρ and T2 values after a marathon, suggesting biochemical changes in articular cartilage, T1ρ values remain elevated after 3 months of reduced activity. The patellofemoral joint and medial compartment of the knee show the highest signal changes, suggesting they are at higher risk for degeneration.