Miracle-dz/UniFAR-FTUs huggingface dataset:
Semi-automated tree-cadastre updating and tree classification based on high-resolution aerial RGB-imagery in Melville, Australia

Tree surveys with the objective of establishing a tree cadastre or communal tree inventory is a time-consuming and expensive work.1 As cadastres are commonly acquired in laborious eld surveys and updating involves regular site inspection, the effort of keeping a cadastre up-to-date is often either too high,2 or a tree inventory is created only once or updated in a coarse temporal resolution. In the underlying study, we present a hybrid approach of merging data from different sources, to update a cadastre (shapefile) containing tree data. A classification of the four most frequent tree species in a study domain in Melville, Western Australia, was carried out. The considered tree species were Jacaranda Mimosifolia, Agonis Flexuosa, Callistemon KP Special, and Ulmus Parvifolia. The classification was performed on high-resolution airborne imagery, using Random Forests, and achieved outstanding results with an overall model accuracy of 93:44% and Cohen's of 89:93 %. This is a considerable step towards automated generation of communal tree cadastres in the contemplated geopgraphic domain. The proposed method demonstrates that (1) high-resolution aerial imagery has great potential in being a precise and efficient alternative for updating or creating communal tree cadastres, (2) updating requires minimal user interaction and can potentially be performed in a fully automated process, and (3) based on the excellent classification results, the considered tree species can now be detected and accurately mapped at scale.
Application of Short Pre-enrichment, and Double Chemistry Real-Time PCR, Combining Fluorescent Probes and an Intercalating Dye, for Same-Day Detection and Confirmation of Salmonella spp. and Escherichia coli O157 in Ground Beef and Chicken Samples

Molecular methods, particularly those based on real-time PCR (qPCR), have become a popular approach to detect pathogens in food samples. This technique may take advantage of hydrolysis fluorescent probes for increased specificity. Even though suitable, this approach loses the capacity of performing result confirmation by melt curve analysis. In the current study, we developed an alternative approach, combining fluorescent probes along with an intercalating dye (SYBR Green) in order to simultaneously detect, and confirm the result, of two foodborne pathogens (Salmonella spp. and Escherichia coli O157). This new approach named double chemistry qPCR was combined with a short pre-enrichment in order to obtain a multiplex “same-day” detection method for the selected pathogens. The evaluation of the novel method in spiked food samples (ground beef and chicken breast) obtained values of relative sensitivity, specificity, and accuracy higher than 95%, and Cohen’s kappa of 0.92, with a Limit of Detection95 below 5 cfu/25 g, demonstrating its reliability. In addition to this, the method was challenged by inoculating heat-stressed bacteria as well as dead ones. It was observed that it was also possible to detect stressed bacteria with an initial inoculation level below 10 cfu/25 g. Also, it was noticed that high initial concentration of either pathogen (higher than 104 cfu/25 g) was needed in order to generate false positive results due to the presence of dead bacteria, thus the method presents potential for its application in the specific detection of live microorganisms.
(p)ppGpp Metabolism and Antimicrobial Resistance in Bacterial Pathogens

Single cell microorganisms including pathogens relentlessly face myriads of physicochemical stresses in their living environment. In order to survive and multiply under such unfavorable conditions, microbes have evolved with complex genetic networks, which allow them to sense and respond against these stresses. Stringent response is one such adaptive mechanism where bacteria can survive under nutrient starvation and other related stresses. The effector molecules for the stringent response are guanosine-5'-triphosphate 3'-diphosphate (pppGpp) and guanosine-3', 5'-bis(diphosphate) (ppGpp), together called (p)ppGpp. These effector molecules are now emerging as master regulators for several physiological processes of bacteria including virulence, persistence, and antimicrobial resistance. (p)ppGpp may work independently or along with its cofactor DksA to modulate the activities of its prime target RNA polymerase and other metabolic enzymes, which are involved in different biosynthetic pathways. Enzymes involved in (p)ppGpp metabolisms are ubiquitously present in bacteria and categorized them into three classes, i.e., canonical (p)ppGpp synthetase (RelA), (p)ppGpp hydrolase/synthetase (SpoT/Rel/RSH), and small alarmone synthetases (SAS). While RelA gets activated in response to amino acid starvation, enzymes belonging to SpoT/Rel/RSH and SAS family can synthesize (p)ppGpp in response to glucose starvation and several other stress conditions. In this review, we will discuss about the current status of the following aspects: (i) diversity of (p)ppGpp biosynthetic enzymes among different bacterial species including enteropathogens, (ii) signals that modulate the activity of (p)ppGpp synthetase and hydrolase, (iii) effect of (p)ppGpp in the production of antibiotics, and (iv) role of (p)ppGpp in the emergence of antibiotic resistant pathogens. Emphasis has been given to the cholera pathogen Vibrio cholerae due to its sophisticated and complex (p)ppGpp metabolic pathways, rapid mutational rate, and acquisition of antimicrobial resistance determinants through horizontal gene transfer. Finally, we discuss the prospect of (p)ppGpp metabolic enzymes as potential targets for developing antibiotic adjuvants and tackling persistence of infections.
Randomized Control Trial of Postnatal rhIGF-1/rhIGFBP-3 Replacement in Preterm Infants: Post-hoc Analysis of Its Effect on Brain Injury

Background: Postnatal insulin-like growth factor-1 (IGF-1) replacement with recombinant human (rh)IGF-1 and IGF binding protein-3 (rhIGF-1/rhIGFBP-3) is being studied as a potential treatment to reduce comorbidities of prematurity. We have recently reported on a phase II, multicenter, randomized, controlled trial comparing postnatal rhIGF-1/rhIGFBP-3 replacement with standard of care (SOC) in extremely preterm infants (NCT01096784). Maximum severity of retinopathy of prematurity was the primary endpoint of the trial and presence of GMH-IVH/PHI one of the pre-specified secondary endpoints. Infants therefore received serial cranial ultrasound scans (CUS) between birth and term age. In this post-hoc analysis we present a detailed analysis of the CUS data of this trial and evaluate the effect of postnatal rhIGF-1/rhIGFBP-3 replacement on the incidence of different kinds of brain injury in extremely preterm infants. Methods: This report is an exploratory post-hoc analysis of a phase II trial in which infants <28 weeks gestational age were randomly allocated to rhIGF-1/rhIGFBP-3 or SOC. Serial cranial ultrasounds were performed between birth and term-equivalent age. Presence of germinal matrix hemorrhage and intraventricular hemorrhage (GMH-IVH), periventricular hemorrhagic infarction (PHI), post-hemorrhagic ventricular dilatation, and white matter injury (WMI) were scored by two independent masked readers. Results: The analysis included 117 infants; 58 received rhIGF-1/rhIGFBP-3 and 59 received SOC. A trend toward less grade II–III GMH-IVH and PHI was observed in treated infants vs. SOC. A subanalysis of infants without evidence of GMH-IVH at study entry (n = 104) showed reduced progression to GMH-IVH in treated infants (25.0% [13/52] vs. 40.4% [21/52]; not significant). No effects of rhIGF-1/rhIGFBP-3 on WMI were observed. Conclusion: The potential protective effect of rhIGF-1/rhIGFBP-3 on the occurrence of GMH-IVH/PHI appeared most pronounced in infants with no evidence of GMH-IVH at treatment start.
An Intrusion Detection Scheme Based on Repeated Game in Smart Home

Smart Home brings a new people-oriented home life experience. However, the edge devices in this system are facing severe threats such as data security and equipment safety. To solve the above problems, this paper proposes an intrusion detection scheme based on repeated game. We first use the K-Nearest Neighbors (KNN) algorithm to classify edge devices and equip the intrusion detection system to cluster heads. Secondly, we use the regret minimization algorithm to determine the mixed strategy Nash equilibrium of the one-order game and then take a severe punishment strategy to domesticate malicious attackers. Thirdly, the intrusion detection system can detect malicious attackers by reduction of payoff. Finally, the detailed experimental results show that the proposed scheme can reduce the loss of attacked intrusion detection system and then achieve the purpose of defending against the attacker.
Draft Genome Sequence of Saccharomyces cerevisiae Strain P-684, Isolated from Prunus verecunda

Saccharomyces cerevisiae strain P-684 is a yeast isolated from the flowers of Prunus verecunda ‘Antiqua,’ producing high quantities of malic and succinic acids in sake brewing. Here, we report the draft genome sequence of P-684, enlightening the mechanisms of biosynthesis of these organic acids by this strain. ABSTRACT Saccharomyces cerevisiae strain P-684 is a yeast isolated from the flowers of Prunus verecunda ‘Antiqua,’ producing high quantities of malic and succinic acids in sake brewing. Here, we report the draft genome sequence of P-684, enlightening the mechanisms of biosynthesis of these organic acids by this strain.
The Dynamics of Vowel Hypo- and Hyperarticulation in Swedish Infant-Directed Speech to 12-Month-Olds

Vowel hypo- and hyperarticulation (VHH) was investigated in Swedish infant-directed speech (IDS) to Swedish 12-month-olds using a measure that normalizes across speakers and vowels: the vhh-index. The vhh-index gives the degree of VHH for each individual vowel token, which allows for analysis of the dynamics of VHH within a conversation. Using both the vhh-index and traditional measures of VHH, the degree of VHH was compared between Swedish IDS and ADS. The vowel space area was larger in IDS than in ADS, and the average vhh-index as well as the modal value was higher in IDS than in ADS. Further, the proportion of vowel tokens that were highly hyperarticulated (vhh-index > 75th percentile) were fewer in ADS than in IDS. Vowels in Swedish IDS to 12-month-olds are thus concluded to be hyperarticulated compared to vowels in Swedish ADS, both in terms of degree and frequency. Findings are in line with previous reports on VHH in Swedish IDS as well as on VHH in IDS to infants around 12 months in other languages. The study considers the importance of robust formant estimation, highlights the need for replication of studies on VHH in IDS on previously studied languages and ages, and discusses the benefits of the vhh-index. Those benefits include that it normalizes across speakers and vowels, can be used for dynamic measures within speech samples, and permits analyses on token-level.
Reciprocal Associations Between Sleep, Mental Strain, and Training Load in Junior Endurance Athletes and the Role of Poor Subjective Sleep Quality

The importance of adequate sleep for athletic functioning is well established. Still, the literature shows that many athletes report sleep of suboptimal quality or quantity. To date, no research has investigated how bidirectional variations in mental and physiological states influence sleep patterns. The present study, therefore, investigates reciprocal associations between sleep, mental strain, and training load by utilizing a prospective, observational design. In all, 56 junior endurance athletes were followed over 61 consecutive days. Unobtrusive, objective measurements of sleep with novel radar technology were obtained, and subjective daily reports of mental strain and training load were collected. The role of subjective sleep quality was investigated to identify whether the reciprocal associations between sleep, mental strain, and training load depended on being a good versus poor sleeper. Multilevel modeling with Bayesian estimation was used to investigate the relationships. The results show that increases in mental strain are associated with decreased total sleep time (TST, 95% CI = −0.12 to −0.03), light sleep (95% CI = −0.08 to −0.00), and sleep efficiency (95% CI = −0.95 to −0.09). Further, both mental strain and training load are associated with subsequent deceased rapid eye movement (REM, respectively, 95% CI = −0.05 to −0.00 and 95% CI = −0.06 to −0.00) sleep. Increases in TST, light, deep, and REM sleep are all associated with subsequent decreased training load (respectively, 95% CI = −0.09 to −0.03; 95% CI = −0.10 to −0.01; 95% CI = −0.22 to −0.02; 95% CI = −0.18 to −0.03). Finally, among poor sleepers, increases in sleep onset latency are associated with increases in subsequent mental strain (95% CI = 0.09–0.46), and increases in deep sleep are associated with decreases in subsequent training load (95% CI = −67.65 to 11.43). These results offer novel insight into the bidirectional associations between sleep, mental strain, and training load in athletes and demonstrate the detrimental effects of mental strain on sleep, likely caused by mental activation incompatible with sleep. An increased need for recovery, suggested by increased TST and time in different sleep stages, is associated with subsequent self-regulatory reduction of training loads by the athletes. In poor sleepers, increases in deep sleep may suggest an elevated need for physiological recovery.
Scene Sells: Why Spatial Backgrounds Outperform Isolated Product Depictions Online

ABSTRACT Online retailers work to optimize product presentations; this study relies on scene perception theory to predict that product images with spatial backgrounds lead to more favorable consumer responses than isolated product images, in which products appear to be floating in the air, because spatial backgrounds facilitate visual processing and aesthetic experiences. Three experiments test these predictions and reveal that consumers evaluate products more favorably, express higher purchase intentions, are willing to pay more, and are more likely to choose a product depicted on a spatial background, even when product characteristics were considered. This effect is robust to short and long exposure times and for durable and consumable products. It is mediated by processing fluency and aesthetic experience and moderated by two variables: shoppers’ purchase involvement and online experience. These findings challenge an established industry practice to use isolated images and suggest that retailers instead should depict products in scenes to facilitate consumers’ perceptions and enhance their own revenues. Moreover, this study highlights the importance of scene perception for efficient and effective information processing in online retailing.
Same nurse but different time: temporal divergence in the facilitation of plant lineages with contrasted functional syndromes

This study was supported by the BBVA Foundation (Ia Convocatoria de Ayudas de la Fundacion BBVA a Proyectos de Investigacion: Area de Ecologia y Biologia de la Conservacion), the Spanish Ministerio de Economia y Competitividad (R+D Project CGL2014‐58333‐P) and the Research Grant 4742‐5780 awarded to J.A. N. by the British Ecological Society. MG acknowledges support by the Programa Ramon y Cajal (Ministerio de Economia y Competitividad). Suggestions by the Associate Editor and two anonymous referees are gratefully acknowledged.
Rectal Acquisition of Simian Immunodeficiency Virus (SIV) SIVmac239 Infection despite Vaccine-Induced Immune Responses against the Entire SIV Proteome

Our results are relevant to HIV vaccine development efforts because they suggest that increasing the number of booster immunizations or delivering additional viral antigens may not necessarily improve vaccine efficacy against immunodeficiency virus infection. ABSTRACT Given the complex biology of human immunodeficiency virus (HIV) and its remarkable capacity to evade host immune responses, HIV vaccine efficacy may benefit from the induction of both humoral and cellular immune responses of maximal breadth, potency, and longevity. Guided by this rationale, we set out to develop an immunization protocol aimed at maximizing the induction of anti-Envelope (anti-Env) antibodies and CD8+ T cells targeting non-Env epitopes in rhesus macaques (RMs). Our approach was to deliver the entire simian immunodeficiency virus (SIV) proteome by serial vaccinations. To that end, 12 RMs were vaccinated over 81 weeks with DNA, modified vaccinia Ankara (MVA), vesicular stomatitis virus (VSV), adenovirus type 5 (Ad5), rhesus monkey rhadinovirus (RRV), and DNA again. Both the RRV and the final DNA boosters delivered a near-full-length SIVmac239 genome capable of assembling noninfectious SIV particles and inducing T-cell responses against all nine SIV proteins. Compared to previous SIV vaccine trials, the present DNA-MVA-VSV-Ad5-RRV-DNA regimen resulted in comparable levels of Env-binding antibodies and SIV-specific CD8+ T-cells. Interestingly, one vaccinee developed low titers of neutralizing antibodies (NAbs) against SIVmac239, a tier 3 virus. Following repeated intrarectal marginal-dose challenges with SIVmac239, vaccinees were not protected from SIV acquisition but manifested partial control of viremia. Strikingly, the animal with the low-titer vaccine-induced anti-SIVmac239 NAb response acquired infection after the first SIVmac239 exposure. Collectively, these results highlight the difficulties in eliciting protective immunity against immunodeficiency virus infection. IMPORTANCE Our results are relevant to HIV vaccine development efforts because they suggest that increasing the number of booster immunizations or delivering additional viral antigens may not necessarily improve vaccine efficacy against immunodeficiency virus infection.
Being My Own Companion in Times of Social Isolation – A 14-Day Mobile Self-Compassion Intervention Improves Stress Levels and Eating Behavior

The worldwide spread of the coronavirus disease (COVID-19) and the resulting lockdown has affected the whole world and the maintenance of healthy eating behavior might be an additional challenge. Self-compassion (SC) interventions emphasize not only treating oneself in a caring way regarding personal weaknesses, e.g., diet lapses, but also the recognition of shared human suffering. Thus, self-compassion might be particularly valuable during the current worldwide crisis due to COVID-19. In this study, N = 65 participants that wanted to lose weight or develop a healthier eating behavior were randomized to either a 14-day self-compassion intervention arm or a waitlist control arm. The intervention consisted of daily journaling exercises and meditations via smartphone with a focus on improving eating behavior. Before and after the intervention phase, questionnaires on self-compassion, eating, dieting, health behavior, stress, and emotion regulation were completed and body weight was determined. Participants in the treatment arm (n = 28) showed an increase in self-compassion, a decrease in perceived stress, eating in response to feeling anxious, and, on trend level, body mass index (BMI). Changes in self-compassion fully mediated changes in stress. No such effects were found in the waitlist control group (n = 29). Thus, self-compassion might help to maintain well-being and healthy eating habits in times of increased stress and isolation. Future studies should replicate these findings outside of the COVID-19 crisis and test the effect of self-compassion in samples with eating disorders or weight problems.
Integrating philosophy, policy and practice to create a just and fair health service

To practise ‘fairly and justly’ a clinician must balance the needs of both the many and the few: the individual patient in front of them, and the many unseen patients in the waiting room, and in the county. They must consider the immediate clinical needs of those in the present, and how their actions will impact on future patients. The good medical practice guidance ‘Make the care of your patient your first concern’ provides no guidance on how doctors should act when they care for multiple patients with conflicting needs. Moreover, conflicting needs extend far past simply those between different patients. At an organisational level, financial obligations must be balanced with clinical ones; the system must support those who work within it in a variety of roles; and, finally, in order for a healthcare service to be sustainable, the demands of current and future generations must be balanced. The central problem, we propose, is that there is no shared philosophical framework on which the provision of care or the development of health policy is based, nor is there a practical, fair and transparent process to ensure that the service is equipped to deal justly with new challenges as they emerge. Many philosophers have grappled with constructing a set of principles which would lead to a ‘good’ society which is just to different users; prominent among them is Rawls. Four important principles can be derived using a Rawlsian approach: equity of access, distributive justice, sustainability and openness. However, Rawls’ approach is sometimes considered too abstract to be applied readily to policymaking; it does not provide clear guidance for how individuals working within existing institutions can enact the principles of justice. We therefore combine the principles derived from Rawls with Scanlonian contractualism: by demanding that decisions are made in a way which cannot be ‘reasonably rejected’ by different stakeholders (including ‘trustees’ for those who cannot represent themselves), we ensure that conflicting needs are considered robustly. We demonstrate how embedding this framework would ensure just policies and fair practice. We illustrate this by using examples of how it would help prevent injustice among different socioeconomic groups, prevent intergenerational injustice and prevent injustice in a crisis, for example, as we respond to new challenges such as COVID-19. Attempts to help individual doctors practise fairly and justly throughout their professional lives are best focused at an institutional or systemic level. We propose a practical framework: combining Scanlonian contractualism with a Rawlsian approach. Adopting this framework would equip the workforce and population to contribute to fair policymaking, and would ultimately result in a healthcare system whose practice and policies—at their core—were just.
Dietary Nitrate Supplementation and Exercise-Related Performance

Over the last decade, there has been a growing interest in the utility of nitrate (NO3−) supplementation to improve exercise-related performance. After consumption, dietary NO3− can be reduced to nitric oxide, a free radical gas involved in numerous physiological actions including blood vessel vasodilation, mitochondrial respiration, and skeletal muscle contractile function. Emerging evidence indicates that dietary NO3− supplementation has a small but nevertheless significant beneficial effect on endurance performance through the combined effects of enhanced tissue oxygenation and metabolic efficiency in active skeletal muscle. There is further evidence to suggest that dietary NO3− exerts a direct influence on contractile mechanisms within the skeletal muscle through alterations in calcium availability and sensitivity. Response heterogeneity and sizeable variability in the nitrate content of beetroot juice products influence the effectiveness of dietary NO3− for exercise performance, and so dosing and product quality, as well as training history, sex, and individual-specific characteristics, should be considered.