Miracle-dz/UniFAR-FTUs huggingface dataset:
Phenotypic variation in Galerida larks in Morocco: the role of history and natural selection

The relative influences of history, natural selection and hybridization in shaping phenotypic variation in closely related taxa is a crucial issue in current evolutionary biology. In this study, we used as a model two sibling but paradoxically highly variable species of larks (Galerida theklae and Galerida cristata) of Morocco to separate the impacts of these evolutionary forces. In the former species, variation is manifested mainly in colouration, while in the latter, variation also encompasses bill size and shape. Mitochondrial and nuclear DNA sequencing were used to identify the historical relationships among the subspecies and species. According to our analyses, G. cristata and G. theklae diverged about 3.7 million years ago (Ma), and we found no evidence for a role of hybridization in maintaining their similarity. In G. theklae, there was no further subdivision, while in G. cristata two major mtDNA groups were identified (divergence ∼1.1 Ma). These two lineages are parapatric and regroup, respectively, the three short‐billed subspecies [G. (cristata) cristata] and the two long‐billed subspecies [G. (cristata) randonii]. Patterns of morphological variation were then contrasted to this pattern of neutral relationships: we found that G. (c.) cristata was morphologically more similar to G. theklae than to G. (c.) randonii. Overall, these results point towards the prominent role of (i) natural selection and/or phenotypic plasticity in adapting the plumage to local conditions and (ii) natural selection in combination with historical isolation in driving the divergence in size and bill morphology in the crested larks.
Assessment ofthe Fixed-Base Driving Simulator as a Learning Tool for Young Adults with Autism Spectrum Disorder and Cognitive Disabilities in the Vocational Rehabilitation Center at the UW -Stout

The purpose of this study was to evaluate if the fixed-base driving simulator, located in the Vocational Rehabilitation Center at the University of Wisconsin-Stout, was an effective learning tool for those with Autism Spectrum Disorder and Cognitive Disabilities. The significance of this study was to assess how effective the simulator was as learning tool for 2 teaching individuals the proper driving principles to assist them in passing their drivers' or permit exam. To determine the effectiveness of the simulator, eleven students from the Transitional Partnership School , affiliated with the Vocational Rehabilitation Center, volunteered to participate in the study. Each of the students were assessed based on the Wechsler Abbreviated Scale of Intelligence (1999), the DSM-IV (American Psychiatric Association, 2000), and were observed by a teacher or an observer who would note the students progression, reactions, and behaviors throughout each session. The students, the observer, and the teacher were subsequently given a post-interview questionnaire to assess the effectiveness of the fixed-base driving simulation. The results of the study were based on the student observational notes taken by the observer and the teacher, as well as the post-interview questionnaires. The concluding results of the study found the fixed-base driving simulator to be an effective learning tool based on the progression, behaviors, and reactions of the students throughout the program, as well as the results of the post-interview questionnaire. However, the simulator program was found to have numerous glitches throughout various sessions which may have hindered the students learning as well as their perception of the overall effectiveness of the simulator. 3
MHD Flow of an Incompressible Viscous Fluid through Convergent or Divergent Channels in Presence of a High Magnetic Field

The flow of an incompressible electrically conducting viscous fluid in convergent or divergent channels under the influence of an externally applied homogeneous magnetic field is studied both analytically and numerically. Navier-Stokes equations of fluid mechanics and Maxwell’s electromagnetism equations are reduced into highly non-linear ordinary differential equation. The resulting non-linear equation has been solved analytically using a very efficient technique, namely, differential transform method (DTM). The DTM solution is compared with the results obtained by a numerical method (shooting method, coupled with fourth-order Runge-Kutta scheme). The plots have revealed the physical characteristics of flow by changing angles of the channel, Hartmann and Reynolds numbers.
Pilot study: Comparing efficacy of 14-day triple therapy Clarithromycin versus levofloxacin on eradication of Helicobacter pylori infection in Syrian population single-center experience

Abstract Context: Goals: To compare the efficacy of standard triple therapy with clarithromycin versus triple therapy with levofloxacin for treatment of Helicobacter pylori-positive infection in a referral hospital in Damascus, Syria. Design: pilot prospective open-label randomized controlled trial. Subjects and Methods: Eighty treatment-naive patients who tested positive for H. pylori gastric infection were randomly assigned to one of two treatment groups with randomization ratio of 50/50. Group (A) was treated with clarithromycin (500 mg), amoxicillin (1000 mg), and esomeprazole (20 mg), each twice/day for 14 days, while Group (B) was treated with levofloxacin (500 mg), amoxicillin (1000 mg), and esomeprazole (20 mg), each twice/day for 14 days. [1] After 6 weeks of treatment, all patients underwent endoscopy and biopsy to evaluate H. pylori infection eradication. Results: Forty patients were allocated in each group; 37 patients completed the follow-up in each group. Thirteen patients in Group (A) were cured, with an eradication rate of 35.1% according to per-protocol analysis (PPA) and 32.5% according to intention-to-treat analysis (ITT), while in Group (B), 11 patients were cured, with an eradication rate of 29.7% according to PPA and 27.5% according to ITT with P = 0.80. No serious adverse events reported in both the groups. Conclusions: Clarithromycin is slightly better than levofloxacin in treatment of H. pylori gastric infection, but both regimens show low effectiveness with suboptimal eradication rates in our selected population.
Antibacterial activity of Croton roxburghii Balak. against the enteric pathogens

In this study, the antibacterial activity of crude (aqueous and alcoholic) extracts of the bark and leaf of Croton roxburghii Balak. (Euphorbiaceae) was tested against enteric pathogens causing urinary tract infection (UTI) using the agar cup method, minimum inhibitory concentration (MIC), time kill kinetics and synergy study. The ethanol extract exhibited a significant and broad spectrum of inhibition as compared to the aqueous extract of both the bark and leaf. The highest antibacterial activity was observed against Staphylococcus aureus followed by enteropathogenic and enterotoxigenic Escherichia coli. The diameter of inhibition zones varied from 10 to 18 mm for both aqueous and alcoholic extracts. The MIC value ranged from 356 to 625 μg/ml. This could justify the traditional use of this plant in dysentery and other infections.
Distortions of Subjective Time Perception Within and Across Senses

Background The ability to estimate the passage of time is of fundamental importance for perceptual and cognitive processes. One experience of time is the perception of duration, which is not isomorphic to physical duration and can be distorted by a number of factors. Yet, the critical features generating these perceptual shifts in subjective duration are not understood. Methodology/Findings We used prospective duration judgments within and across sensory modalities to examine the effect of stimulus predictability and feature change on the perception of duration. First, we found robust distortions of perceived duration in auditory, visual and auditory-visual presentations despite the predictability of the feature changes in the stimuli. For example, a looming disc embedded in a series of steady discs led to time dilation, whereas a steady disc embedded in a series of looming discs led to time compression. Second, we addressed whether visual (auditory) inputs could alter the perception of duration of auditory (visual) inputs. When participants were presented with incongruent audio-visual stimuli, the perceived duration of auditory events could be shortened or lengthened by the presence of conflicting visual information; however, the perceived duration of visual events was seldom distorted by the presence of auditory information and was never perceived shorter than their actual durations. Conclusions/Significance These results support the existence of multisensory interactions in the perception of duration and, importantly, suggest that vision can modify auditory temporal perception in a pure timing task. Insofar as distortions in subjective duration can neither be accounted for by the unpredictability of an auditory, visual or auditory-visual event, we propose that it is the intrinsic features of the stimulus that critically affect subjective time distortions.
Patterns of Contract Motives and Work Involvement in Temporary Work: Relationships to Work-Related and General Well-Being

Temporary work is characterized by heterogeneity, and contract motives and work involvement are believed to differentiate temporary workers, which may explain their divergence in terms of subjective well-being. Applying a person-oriented approach using questionnaire data from a sample of Swedish temporary workers (N = 184), this study identified six patterns, characterized by distinct combinations of voluntary and involuntary contract motives and work involvement. While controlling for demo-graphics, comparative analyses found differences between these patterns in terms of work-related and general well-being. These findings indicate that knowledge about temporary work and its various consequences is enhanced by considering whole patterns instead of single variables in a person-oriented approach.
Life history and development ‐ a framework for understanding developmental plasticity in lower termites

Termites (Isoptera) are the phylogenetically oldest social insects, but in scientific research they have always stood in the shadow of the social Hymenoptera. Both groups of social insects evolved complex societies independently and hence, their different ancestry provided them with different life‐history preadaptations for social evolution. Termites, the ‘social cockroaches’, have a hemimetabolous mode of development and both sexes are diploid, while the social Hymenoptera belong to the holometabolous insects and have a haplodiploid mode of sex determination. Despite this apparent disparity it is interesting to ask whether termites and social Hymenoptera share common principles in their individual and social ontogenies and how these are related to the evolution of their respective social life histories. Such a comparison has, however, been much hampered by the developmental complexity of the termite caste system, as well as by an idiosyncratic terminology, which makes it difficult for non‐termitologists to access the literature.
Phase I Study of the Prolactin Receptor Antagonist LFA102 in Metastatic Breast and Castration-Resistant Prostate Cancer

Lessons Learned Despite evidence for a role for prolactin signaling in breast and prostate tumorigenesis, a prolactin receptor-binding monoclonal antibody has not produced clinical efficacy. Increased serum prolactin levels may be a biomarker for prolactin receptor inhibition. Results from the pharmacokinetic and pharmacodynamics (PD) studies suggest that inappropriately long dosing intervals and insufficient exposure to LFA102 may have resulted in lack of antitumor efficacy. Based on preclinical data, combination therapy of LFA102 with those novel agents targeting hormonal pathways in metastatic castration-resistant prostate cancer and metastatic breast cancer is promising. Given the PD evidence of prolactin receptor blockade by LFA102, this drug has the potential to be used in conditions such as hyperprolactinemia that are associated with high prolactin levels. Background. Prolactin receptor (PRLR) signaling is implicated in breast and prostate cancer. LFA102, a humanized monoclonal antibody (mAb) that binds to and inhibits the PRLR, has exhibited promising preclinical antitumor activity. Methods. Patients with PRLR-positive metastatic breast cancer (MBC) or metastatic castration-resistant prostate cancer (mCRPC) received doses of LFA102 at 3–60 mg/kg intravenously once every 4 weeks. Objectives were to determine the maximum tolerated dose (MTD) and/or recommended dose for expansion (RDE) to investigate the safety/tolerability of LFA102 and to assess pharmacokinetics (PK), pharmacodynamics (PD), and antitumor activity. Results. A total of 73 patients were enrolled at 5 dose levels. The MTD was not reached because of lack of dose-limiting toxicities. The RDE was established at 60 mg/kg based on PK and PD analysis and safety data. The most common all-cause adverse events (AEs) were fatigue (44%) and nausea (33%) regardless of relationship. Grade 3/4 AEs reported to be related to LFA102 occurred in 4% of patients. LFA102 exposure increased approximately dose proportionally across the doses tested. Serum prolactin levels increased in response to LFA102 administration, suggesting its potential as a biomarker for PRLR inhibition. No antitumor activity was detected. Conclusion. Treatment with LFA102 was safe and well tolerated, but did not show antitumor activity as monotherapy at the doses tested.
K-RAS Mutant Pancreatic Tumors Show Higher Sensitivity to MEK than to PI3K Inhibition In Vivo

Activating K-RAS mutations occur at a frequency of 90% in pancreatic cancer, and to date no therapies exist targeting this oncogene. K-RAS signals via downstream effector pathways such as the MAPK and the PI3K signaling pathways, and much effort has been focused on developing drugs targeting components of these pathways. To better understand the requirements for K-RAS and its downstream signaling pathways MAPK and PI3K in pancreatic tumor maintenance, we established an inducible K-RAS knock down system that allowed us to ablate K-RAS in established tumors. Knock down of K-RAS resulted in impaired tumor growth in all pancreatic xenograft models tested, demonstrating that K-RAS expression is indeed required for tumor maintenance of K-RAS mutant pancreatic tumors. We further examined signaling downstream of K-RAS, and detected a robust reduction of pERK levels upon K-RAS knock down. In contrast, no effect on pAKT levels could be observed due to almost undetectable basal expression levels. To investigate the requirement of the MAPK and the PI3K pathways on tumor maintenance, three selected pancreatic xenograft models were tested for their response to MEK or PI3K inhibition. Tumors of all three models regressed upon MEK inhibition, but showed less pronounced response to PI3K inhibition. The effect of MEK inhibition on pancreatic xenografts could be enhanced further by combined application of a PI3K inhibitor. These data provide further rationale for testing combinations of MEK and PI3K inhibitors in clinical trials comprising a patient population with pancreatic cancer harboring mutations in K-RAS.
A fractionally integrated ECOGARCH process

In this paper we introduce a fractionally integrated exponential continuous time GARCH(p, d, q) process. It is defined in such a way that it is a continuous time extension of the discrete time FIEGARCH(p, d, q) process. We investigate stationarity and moment properties of the new model. It is also shown that the long memory effect introduced in the log-volatility propagates to the volatility process.
Rethinking Nature: Public Visions in the Netherlands

This study addresses two questions: (1) what visions of nature do lay people subscribe to? (2) to what extent do these visions reflect those of professional philosophers? Four philosophical images of the human-nature relationship were discussed with respondents; Master, Steward, Partner and Participant. Respondents recognise these images, but prefer to construct their own. Elements of their images are (1) that humans are part of nature, but (2) that they are responsible for nature as well. This study indicates that empirical philosophy can contribute to the further development of environmental philosophy. Through an empirical turn we can discover people's own voice.
Association of Obesity with Serum Leptin, Adiponectin, and Serotonin and Gut Microflora in Beagle Dogs

Background Serotonin (5‐hydroxytryptamine, 5HT) is involved in hypothalamic regulation of energy consumption. Also, the gut microbiome can influence neuronal signaling to the brain through vagal afferent neurons. Therefore, serotonin concentrations in the central nervous system and the composition of the microbiota can be related to obesity. Objective To examine adipokine, and, serotonin concentrations, and the gut microbiota in lean dogs and dogs with experimentally induced obesity. Animals Fourteen healthy Beagle dogs were used in this study. Methods Seven Beagle dogs in the obese group were fed commercial food ad libitum, over a period of 6 months to increase their weight and seven Beagle dogs in lean group were fed a restricted amount of the same diet to maintain optimal body condition over a period of 6 months. Peripheral leptin, adiponectin, 5HT, and cerebrospinal fluid (CSF‐5HT) levels were measured by ELISA. Fecal samples were collected in lean and obese groups 6 months after obesity was induced. Targeted pyrosequencing of the 16S rRNA gene was performed using a Genome Sequencer FLX plus system. Results Leptin concentrations were higher in the obese group (1.98 ± 1.00) compared to those of the lean group (1.12 ± 0.07, P = .025). Adiponectin and 5‐hydroytryptamine of cerebrospinal fluid (CSF‐5HT) concentrations were higher in the lean group (27.1 ± 7.28) than in the obese group (14.4 ± 5.40, P = .018). Analysis of the microbiome revealed that the diversity of the microbial community was lower in the obese group. Microbes from the phylum Firmicutes (85%) were predominant group in the gut microbiota of lean dogs. However, bacteria from the phylum Proteobacteria (76%) were the predominant group in the gut microbiota of dogs in the obese group. Conclusions and Clinical Importance Decreased 5HT levels in obese group might increase the risk of obesity because of increased appetite. Microflora enriched with gram‐negative might be related with chronic inflammation status in obese dogs.
EDITORIAL: Consilience of rodent and human phenotypes relevant for alcohol dependence

A diagnosis of the substance abuse disorder alcohol dependence (AD) based on the DSM-IVR is categorical, and presentation of any 3 of 7 symptoms with persistence of at least one year is required. This means that any group of individuals with a diagnosis reflects substantial clinical heterogeneity, which likely reflects heterogeneity at the etiological, biological, and genetic levels (Hasin et al. 2006;Kendler 2006). Yet, most clinical genetic research has been directed toward diagnostic groups. Throughout biological psychiatry, the modest success in identifying genes associated with diagnoses has fueled a trend toward a focus on endophenoypes or intermediate phenotypes (Gottesman, Gould 2003), but such studies are still in the minority. An array of endophenotypes is under investigation, including but not limited to low response (LR) to alcoholism and electrophysiological responses such as low voltage fast power or P300 of the event related potential. In addition to intermediate phenotypes, there are numerous risk factors under investigation in human studies, ranging from personality traits such as behavioral under-control to comorbid diagnoses such as antisocial personality disorder, anxiety disorders, and depression (Kendler et al. 2008;Pihl 2007).
Motor-Sensory Recalibration Modulates Perceived Simultaneity of Cross-Modal Events at Different Distances

A popular model for the representation of time in the brain posits the existence of a single, central-clock. In that framework, temporal distortions in perception are explained by contracting or expanding time over a given interval. We here present evidence for an alternative account, one which proposes multiple independent timelines coexisting within the brain and stresses the importance of motor predictions and causal inferences in constructing our temporal representation of the world. Participants judged the simultaneity of a beep and flash coming from a single source at different distances. The beep was always presented at a constant delay after a motor action, while the flash occurred at a variable delay. Independent shifts in the implied timing of the auditory stimulus toward the motor action (but not the visual stimulus) provided evidence against a central-clock model. Additionally, the hypothesis that the time between action and delayed effect is compressed (known as intentional binding) seems unable to explain our results: firstly, because actions and effects can perceptually reverse, and secondly because the recalibration of simultaneity remains even after the participant’s intentional actions are no longer present. Contrary to previous reports, we also find that participants are unable to use distance cues to compensate for the relatively slower speed of sound when audio-visual events are presented in depth. When a motor act is used to control the distal event, however, adaptation to the delayed auditory signal occurs and subjective cross-sensory synchrony is maintained. These results support the hypothesis that perceptual timing derives from and is calibrated by our motor interactions with the world.
Assessing vulnerability of functional diversity to species loss: a case study in Mediterranean agricultural systems

Summary Increasing land-use intensification is leading to biodiversity losses world-wide, which can reduce the functioning of ecosystems. However, it is increasingly clear that not all species are equally important for ecosystem processes: whereas the loss of a functionally unique species may reduce the capacity of the community to perform some functions, losing a functionally redundant species should have a much smaller impact. Assessing the vulnerability of functional diversity (FD) to species extinctions can help to predict the impacts of land-use intensification. This approach consists in ranking species according to their risk of extinction and then estimating the trajectory followed by FD as species are lost from local communities. However, the most widely used FD indices are not independent of species richness, being much more sensitive to the loss of species in species-poor than in species-rich sites. This may result in misleading interpretations, affecting our ability to rank communities according to the vulnerability of their FD to species loss, by confounding it with the initial level of species richness. Here, we propose comparing the trajectory of FD under the most plausible order of species loss with that followed under random species losses as an effective way to remove the trivial effect of species richness in the assessments of vulnerability to species loss. After decoupling vulnerability from species richness, we used it to analyse the effect of agricultural intensification on the vulnerability of arable plant communities in Mediterranean agricultural fields. Our results show that management strategies aiming to increase the functionality of these systems should focus on intermediately intensified fields, where small reductions in the level of intensification are likely to benefit arable plant diversity, increasing the number of species and FD and decreasing the vulnerability of FD to species losses. Removing the effect of species richness is essential to attain unbiased estimations of the vulnerability of communities to species loss, especially when species-poor communities are considered. Combining vulnerability with information on taxonomic and functional diversity appears as a promising tool to inform decision-making processes, anticipating the effects of local extinctions.