Miracle-dz/UniFAR-FTUs huggingface dataset:
Development of Taste Sensor to Detect Non-Charged Bitter Substances

A taste sensor with lipid/polymer membranes is one of the devices that can evaluate taste objectively. However, the conventional taste sensor cannot measure non-charged bitter substances, such as caffeine contained in coffee, because the taste sensor uses the potentiometric measurement based mainly on change in surface electric charge density of the membrane. In this study, we aimed at the detection of typical non-charged bitter substances such as caffeine, theophylline and theobromine included in beverages and pharmaceutical products. The developed sensor is designed to detect the change in the membrane potential by using a kind of allosteric mechanism of breaking an intramolecular hydrogen bond between the carboxy group and hydroxy group of aromatic carboxylic acid (i.e., hydroxy-, dihydroxy-, and trihydroxybenzoic acids) when non-charged bitter substances are bound to the hydroxy group. As a result of surface modification by immersing the sensor electrode in a modification solution in which 2,6-dihydroxybenzoic acid was dissolved, it was confirmed that the sensor response increased with the concentration of caffeine as well as allied substances. The threshold and increase tendency were consistent with those of human senses. The detection mechanism is discussed by taking into account intramolecular and intermolecular hydrogen bonds, which cause allostery. These findings suggest that it is possible to evaluate bitterness caused by non-charged bitter substances objectively by using the taste sensor with allosteric mechanism.
Changes in the abundance of New Zealand fur seals, Arctocephalus forsteri, in Western Australia

New Zealand fur seals, Arctocephalus forsteri, have been increasing in abundance in South Australia for at least the past three decades. A survey of New Zealand fur seals during the 1989/90 breeding season determined that about 20% of the Australian population bred at 16 sites in Western Australia, amounting to 1429 pups and an absolute abundance estimate of 7100 fur seals. A further survey of all fur seal colonies in Western Australia to determine current pup production and abundance estimates, and trends in pup production since the previous survey was undertaken in January 1999. Of the 17 breeding sites now known in Western Australia, 16 were surveyed and pup production had increased at all but one. The rate of change in pup production at the one unsurveyed site (West Island), was estimated as being equivalent to the mean rate of change at other sites. The estimated mean annual, exponential rate of increase (r) for all sites was 0.09, equivalent to a 9.8% annual increase in pup production and an overall increase in pup production in Western Australia of 113.3% between surveys. Total annual pup production has increased to 3090. The estimate of absolute abundance of New Zealand fur seals in Western Australia is now 15 100, in contrast to the 7100 estimated for the 1989/90 season. Mortality of pups at the time of the survey was estimated to be at least 1.3%. It is predicted that New Zealand fur seal populations will continue to increase in Western Australia. This is likely to have important management implications regarding aquaculture and fisheries activities. The increase in fur seal populations appears to be in contrast to populations of Australian sea lions, Neophoca cinerea, for which preliminary data show no evidence for a population increase. It is unknown whether the dynamics affecting these two species are related.
Anomalous aortic origin of coronary arteries: an alternative to the unroofing strategy.

OBJECTIVES Anomalous aortic origin of a coronary artery (AAOCA) is the second leading cause of sudden death in children and young adults. The most threatening anatomy is an interarterial and an intramural course, both probably involved in ischaemic phenomena and sudden death. The treatment of interarterial AAOCA remains controversial. Most of the published studies describe the results of the unroofing technique. Our study aims to evaluate the results of a different surgical approach. METHODS From 2005 to 2019, 61 patients were operated on for an interarterial AAOCA (median age 14.7 years). Forty patients had a right AAOCA, and 21 patients had a left AAOCA including 5 patients with intraseptal course. Seventy percent of patients were symptomatic. Five patients had an aborted sudden cardiac death. Two surgical techniques were used: an 'anatomical' repair for 35 patients (15 left and 22 right AAOCA) or a coronary translocation with creation of a neo-ostia in 19 patients (1 left and 18 right AAOCA). The 5 left AAOCA patients with an intra-septal course required a complete release of the coronary artery from the septum. RESULTS There was no early or late postoperative death. Three patients had an acute postoperative ischaemic event. Two patients required immediate angioplasty and stenting: 1 patient (7 years) with a hypoplastic right AAOCA and 1 patient (66 years) for inadequate tailoring after septal release. The third patient required an immediate surgical revision (H-2) for left AAOCA thrombosis at the level of the pericardial patch with full myocardial recovery at discharge. During follow-up, 1 patient with right AAOCA translocation and chronic chest pain required subsequent stenting and finally a coronary artery bypass grafting 2 years after initial surgery. One patient who had an asymptomatic mild right coronary stenosis 1 year after anatomical repair was successfully treated by angioplasty alone. All patients but 1 who underwent coronary translocation are totally asymptomatic. All patients with anatomical repair or septal release are free from ischaemic symptoms. CONCLUSIONS Anatomical repair might provide a better protective option for these patients. Unlike unroofing, it treats the entire intramural segment, relocates the ostium at the appropriate sinus level and corrects any acute take-off angle.
Mitochondrial DNA and ITS1 Differentiation in Geographical Populations of Northern Corn Rootworm, Diabrotica barberi (Coleoptera: Chrysomelidae): Identification of Distinct Genetic Populations

Abstract Genetic variation of mitochondrial DNA (mtDNA) and the nuclear ribosomal spacer, ITS1, in local and dispersed geographical populations of northern corn rootworm, Diabrotica barberi Smith & Lawrence was examined. Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) was used for mtDNA and DNA sequencing plus PCR-RFLP analysis was used for ITS1. Insects were collected in 10 states ranging from Pennsylvania to the Great Plains. Sequencing of the ITS1 amplicon revealed three potential polymorphic sites, one of which altered a restriction site for the restriction enzyme BclI. PCR-RFLP analysis with BclI detected three genotypes. Many beetles had heterogeneity at the nucleotide site recognized by BclI, which was supported by DNA sequence data. There appears to be a phylogeographic pattern of ITS1 genetic diversity. Eastern populations were homogeneous for one genotype, populations from central and northern locations had two genotypes, and western populations were composed of all three genotypes. The mtDNA had 58 haplotypes that displayed a strong east-west geographical partition. The region of overlap occurred in a few counties of east-central Illinois. Populations to the east had less variability than those to the west. A network of restriction site changes and trees based on genetic distance measurements of the mtDNA produced two distinct clades. One clade contained all the eastern haplotypes along with a group of haplotypes from the northern Great Plains. The other clade included the remaining western haplotypes. Possible reasons for this population structure including expansion from different glacial relicts, historic host plant differences, and endosymbiont driven reproductive incompatibilities are discussed.
Risk Factors Associated with Antibiotic Treatment Failure of Buruli Ulcer

Combination antibiotic therapy is highly effective in curing Buruli ulcer (BU) caused by Mycobacterium ulcerans. Treatment failures have been uncommonly reported with the recommended 56 days of antibiotics, and little is known about risk factors for treatment failure. We analyzed treatment failures among BU patients treated with ≥56 days of antibiotics from a prospective observational cohort at Barwon Health, Victoria, from 1 January 1998 to 31 December 2018. ABSTRACT Combination antibiotic therapy is highly effective in curing Buruli ulcer (BU) caused by Mycobacterium ulcerans. Treatment failures have been uncommonly reported with the recommended 56 days of antibiotics, and little is known about risk factors for treatment failure. We analyzed treatment failures among BU patients treated with ≥56 days of antibiotics from a prospective observational cohort at Barwon Health, Victoria, from 1 January 1998 to 31 December 2018. Treatment failure was defined as culture-positive recurrence within 12 months of commencing antibiotics under the following conditions: (i) following failure to heal the initial lesion or (ii) a new lesion developing at the original or at a new site. A total of 430 patients received ≥56 days of antibiotic therapy, with a median duration of 56 days (interquartile range [IQR], 56 to 80). Seven (1.6%) patients experienced treatment failure. For six adult patients experiencing treatment failure, all were male, weighed >90 kg, did not have surgery, and received combination rifampin-clarithromycin (median rifampin dose, 5.6 mg per kg of body weight per day; median clarithromycin dose, 8.1 mg/kg/day). When compared to those who did not fail treatment on univariate analysis, treatment failure was significantly associated with a weight of >90 kg (P < 0.001), male gender (P = 0.02), immune suppression (P = 0.04), and a first-line regimen of rifampin-clarithromycin compared to a regimen of rifampin-fluoroquinolone (P = 0.05). There is a low rate of treatment failure in Australian BU patients treated with rifampin-based oral combination antibiotic therapy. Our study raises the possibility that treatment failure risk may be increased in males, those with a body weight of >90 kg, those with immune suppression, and those taking rifampin-clarithromycin antibiotic regimens, but future pharmacokinetic and pharmacodynamics studies are required to determine the validity of these hypotheses.
How and Why Are Cancers Acidic? Carbonic Anhydrase IX and the Homeostatic Control of Tumour Extracellular pH

The acidic tumour microenvironment is now recognized as a tumour phenotype that drives cancer somatic evolution and disease progression, causing cancer cells to become more invasive and to metastasise. This property of solid tumours reflects a complex interplay between cellular carbon metabolism and acid removal that is mediated by cell membrane carbonic anhydrases and various transport proteins, interstitial fluid buffering, and abnormal tumour-associated vessels. In the past two decades, a convergence of advances in the experimental and mathematical modelling of human cancers, as well as non-invasive pH-imaging techniques, has yielded new insights into the physiological mechanisms that govern tumour extracellular pH (pHe). In this review, we examine the mechanisms by which solid tumours maintain a low pHe, with a focus on carbonic anhydrase IX (CAIX), a cancer-associated cell surface enzyme. We also review the accumulating evidence that suggest a role for CAIX as a biological pH-stat by which solid tumours stabilize their pHe. Finally, we highlight the prospects for the clinical translation of CAIX-targeted therapies in oncology.
Grupos funcionales alimentarios de macroinvertebrados acuáticos en el río Gaira, Colombia

Functional feeding groups of macroinvertebrates in Gaira river, Colombia. Tropical rivers are frequently described on their biodiversity but few studies have considered the ecological value of this richness in their food webs. We determined the trophic structure of aquatic macroinvertebrate communities (expressed in the richness and abundance of taxa and biomass proportions of different functional feeding groups) at the level of the river, stretch and microhabitats (functional units - UFs). We evaluated the spatial and temporal variation of these descriptors during wet and dry events, and selected three sites associated with different altitudinal belts. We reported 109 taxa, with 11 167 individuals who contributed 107.11g of biomass. Density of macroinvertebrates was favored with increasing height, and biomass showed the opposite pattern (K-W=10.1, d.f.=1, p<0.05), due to the addition of large crustaceans (Macrobrachium), and the taxa diversity was higher in the middle stretch of the river (H'=3.16). The Gaira stream runs through a mid-sized river basin, for this reason we found mainly bedrock (epilithon=50.5%), gravel and sand (43.7%). The functional unit with more habitat and food resources that contains a higher abundance of leaf litter macroinvertebrates was foliage followed by epilithon, fine sedi- ment and gravel-sand (K-W=25.3, d.f.=3, p<0.05). The biomass values of these organisms were higher in leaves followed by gravel-sands, epilithon and sediment (K-W=15.3, d.f.=3, p<0.05). Autochthonous biomass input by different functional feeding groups can be considered very low, but they define the functionality of the stream, being represented almost exclusively by shredders (Macrobrachium, 73%), present only in the lower reaches, followed by shredder Leptonema with 15%, located mostly in the upper reaches and predatory stoneflies of the genus Anacroneuria to 6.56%, which dominated in the middle stretch of stream. Excluding Macrobrachium from the analysis, there was dominance of Anacroneuria in the lower reaches. Between rainfall and drought events, biomass of functional feeding groups was higher in rain (W=10.1, d.f.=1, p<0.05), favoring the growth of decapods, but the abundance was much higher during drought events. Rev. Biol. Trop. 59 (4): 1537-1552. Epub 2011 December 01.
Fine-scale genetic structure of the ringtail (Bassariscus astutus) in a Sky Island mountain range

Landscape complexity provides opportunities for local adaptation and creates population genetic structure at limited geographic scales. We determined if fine-scale genetic structure was evident in a population of ringtails (Bassariscus astutus) inhabiting the Guadalupe Mountains, a small, isolated, and ecologically diverse mountain range in the southwest United States. We hypothesized that ringtails would exhibit either a genetic pattern of isolation by distance (IBD), because their small body size would most likely limit dispersal distances, or a pattern of isolation by resistance (IBR), because the topographical complexity of the mountain range would result in complex dispersal patterns. To investigate for the presence of fine-scale genetic structure in this population, we genotyped 153 ringtails at 15 microsatellite loci and described genetic structure using 2 Bayesian clustering techniques. Six genetic clusters were identified revealing complex spatial genetic structure within a localized geographic area. We used partial Mantel tests to test for a correlation between genetic distance and geographic distance or resistance distance but found no evidence for a genetic pattern related to IBD or IBR. We subsequently tested for an association between genetic structure and isolation by environment (IBE) using a discriminant function analysis and classified a high proportion of individuals (> 91%) to their observed genetic cluster based exclusively on landscape features. We also used a nonparametric, multivariate analysis of variance to further explore the role of land-cover type and found that plant association explained 26% of the genetic variation. These results suggest that IBE influences the genetic structure of ringtails at local geographic scales, a finding that deserves consideration in conservation planning.
Efficacy of commercial formulations of entomopathogenic nematodes against tropical sod webworm, Herpetogramma phaeopteralis (Lepidoptera: Crambidae)

Large quantities of insecticides are used on warm season turfgrasses to combat pest infestations. To investigate the potential for microbial control, we screened commercially available entomopathogenic nematode products against Herpetogramma phaeopteralis Guenée, an economically injurious pest in the south‐eastern United States and Caribbean islands. All tested products, based on Steinernema carpocapsae, S. feltiae, Heterorhabditis bacteriophora, H. megidis and H. indica, were pathogenic to H. phaeopteralis larvae in the laboratory, but S. carpocapsae caused the highest mortality. Amongst nematode species, median lethal concentration (LC50) was not different for three different larval sizes (based on 95% CL) with the exception of H. indica, which had higher LC50 for small larvae. The number of infective juvenile stages (IJs) produced per White trap was significantly greater from larvae infected by H. bacteriophora and least for those infected by H. indica. A proprietary formulation of S. carpocapsae ‘Millenium®’ was chosen for further greenhouse experiments. Overall, the neonicotinoid insecticide clothianidin provided the best control, but greenhouse experiments also revealed that the label rate of Millenium (106 IJ/l at 2500 l/ha) reduced webworm populations by 83–93% and was as effective as clothianidin against larger‐size larvae. Our data suggest that commercial formulations of S. carpocapsae can be a good option for H. phaeopteralis biocontrol, but further field studies are warranted to confirm effectiveness under different environmental scenarios.
Character-Level Neural Language Modelling in the Clinical Domain

Word embeddings have become the predominant representation scheme on a token-level for various clinical natural language processing (NLP) tasks. More recently, character-level neural language models, exploiting recurrent neural networks, have again received attention, because they achieved similar performance against various NLP benchmarks. We investigated to what extent character-based language models can be applied to the clinical domain and whether they are able to capture reasonable lexical semantics using this maximally fine-grained representation scheme. We trained a long short-term memory network on an excerpt from a table of de-identified 50-character long problem list entries in German, each of which assigned to an ICD-10 code. We modelled the task as a time series of one-hot encoded single character inputs. After the training phase we accessed the top 10 most similar character-induced word embeddings related to a clinical concept via a nearest neighbour search and evaluated the expected interconnected semantics. Results showed that traceable semantics were captured on a syntactic level above single characters, addressing the idiosyncratic nature of clinical language. The results support recent work on general language modelling that raised the question whether token-based representation schemes are still necessary for specific NLP tasks.
B-Cell Lymphoma 2 (Bcl-2) and Regulation of Apoptosis after Traumatic Brain Injury: A Clinical Perspective

Background and Objectives: The injury burden after head trauma is exacerbated by secondary sequelae, which leads to further neuronal loss. B-cell lymphoma 2 (Bcl-2) is an anti-apoptotic protein and a key modulator of the programmed cell death (PCD) pathways. The current study evaluates the clinical evidence on Bcl-2 and neurological recovery in patients after traumatic brain injury (TBI). Materials and Methods: All studies in English were queried from the National Library of Medicine PubMed database using the following search terms: (B-cell lymphoma 2/Bcl-2/Bcl2) AND (brain injury/head injury/head trauma/traumatic brain injury) AND (human/patient/subject). There were 10 investigations conducted on Bcl-2 and apoptosis in TBI patients, of which 5 analyzed the pericontutional brain tissue obtained from surgical decompression, 4 studied Bcl-2 expression as a biomarker in the cerebrospinal fluid (CSF), and 1 was a prospective randomized trial. Results: Immunohistochemistry (IHC) in 94 adults with severe TBI showed upregulation of Bcl-2 in the pericontusional tissue. Bcl-2 was detected in 36–75% of TBI patients, while it was generally absent in the non-TBI controls, with Bcl-2 expression increased 2.9- to 17-fold in TBI patients. Terminal deoxynucleotidyl transferase-mediated biotinylated dUTP nick-end labeling (TUNEL) positivity for cell death was detected in 33–73% of TBI patients. CSF analysis in 113 TBI subjects (90 adults, 23 pediatric patients) showed upregulation of Bcl-2 that peaked on post-injury day 3 and subsequently declined after day 5. Increased Bcl-2 in the peritraumatic tissue, rising CSF Bcl-2 levels, and the variant allele of rs17759659 are associated with improved mortality and better outcomes on the Glasgow Outcome Score (GOS). Conclusions: Bcl-2 is upregulated in the pericontusional brain and CSF in the acute period after TBI. Bcl-2 has a neuroprotective role as a pro-survival protein in experimental models, and increased expression in patients can contribute to improvement in clinical outcomes. Its utility as a biomarker and therapeutic target to block neuronal apoptosis after TBI warrants further evaluation.
Normal Ethanol Sensitivity and Rapid Tolerance Require the G Protein Receptor Kinase 2 in Ellipsoid Body Neurons in Drosophila

Background G protein signaling pathways are key neuromodulatory mechanisms for behaviors and neurological functions that affect the impact of ethanol (EtOH) on locomotion, arousal, and synaptic plasticity. Here, we report a novel role for the Drosophila G protein–coupled receptor kinase 2 (GPRK2) as a member of the GRK4/5/6 subfamily in modulating EtOH‐induced behaviors. Methods We studied the requirement of Drosophila Gprk2 for naïve sensitivity to EtOH sedation and ability of the fly to develop rapid tolerance after a single exposure to EtOH, using the loss of righting reflex (LORR) and fly group activity monitor (FlyGrAM) assays. Results Loss‐of‐function Gprk2 mutants demonstrate an increase in alcohol‐induced hyperactivity, reduced sensitivity to the sedative effects of EtOH, and diminished rapid tolerance after a single intoxicating exposure. The requirement for Gprk2 in EtOH sedation and rapid tolerance maps to ellipsoid body neurons within the Drosophila brain, suggesting that wild‐type Gprk2 is required for modulation of locomotion and alertness. However, even though Gprk2 loss of function leads to decreased and fragmented sleep, this change in the sleep state does not depend on Gprk2 expression in the ellipsoid body. Conclusion Our work on GPRK2 has established a role for this GRK4/5/6 subfamily member in EtOH sensitivity and rapid tolerance.