Miracle-dz/UniFAR-FTUs huggingface dataset:
Colony geometry and structural complexity of the endangered species Acropora cervicornis partly explains the structure of their associated fish assemblage

In the past decade, significant efforts have been made to describe fish-habitat associations. However, most studies have oversimplified actual connections between fish assemblages and their habitats by using univariate correlations. The purpose of this study was to identify the features of habitat forming corals that facilitate and influences assemblages of associated species such as fishes. For this we developed three-dimensional models of colonies of Acropora cervicornis to estimate geometry (length and height), structural complexity (i.e., volume, density of branches, etc.) and biological features of the colonies (i.e., live coral tissue, algae). We then correlated these colony characteristics with the associated fish assemblage using multivariate analyses. We found that geometry and complexity were better predictors of the structure of fish community, compared to other variables such as percentage of live coral tissue or algae. Combined, the geometry of each colony explained 40% of the variability of the fish assemblage structure associated with this coral species; 61% of the abundance and 69% of fish richness, respectively. Our study shows that three-dimensional reconstructions of discrete colonies of Acropora cervicornis provides a useful description of the colonial structural complexity and may explain a great deal of the variance in the structure of the associated coral reef fish community. This demonstration of the strongly trait-dependent ecosystem role of this threatened species has important implications for restoration and conservation efforts.
Do cuckoos choose nests of great reed warblers on the basis of host egg appearance?

Prevailing theory assumes cuckoos lay at random among host nests within a population, although it has been suggested that cuckoos could choose large nests and relatively active pairs within host populations. We tested the hypothesis that egg matching could be improved by cuckoos choosing nests in which host eggs more closely match their own, by assessing matching and monitoring nest fate in great reed warblers naturally or experimentally parasitized by eggs of European cuckoos. A positive correlation between cuckoo and host egg visual features suggests that cuckoos do not lay at random within a population, but choose nests and this improves egg matching: naturally parasitized cuckoo eggs were more similar to host eggs as perceived by humans and as measured by spectrophotometry. Our results suggest a hitherto overlooked step in cuckoo–host evolutionary arms races, and have nontrivial implications for the common experimental practice of artificially parasitizing clutches.
Ten Perspectives on Emotional Experience: Introduction to the Special Issue

Author note: We thank Mark Textor for a clarifying note concerning Brentano’s views on phenomenality, and several contributors to this special issue for their comments on diverse issues discussed in our introduction. Corresponding author: Rainer Reisenzein, Institute of Psychology, University of Greifswald, Franz-Mehring-Strase 47, 17487 Greifswald, Germany. Email: rainer.reisenzein@uni-greifswald.de Ten Perspectives on Emotional Experience: Introduction to the Special Issue
Pulmonary Surfactant Films Affected by Solvent Vapors

Pulmonary surfactant obtained from rabbit lung lavage was evaluated with the pulsating bubble surfactometer. Because surfactant forms a monomolecular film at the air-liquid interface consisting mainly of phospholipids, solvent vapors, which might be inhaled, could have a destructive influence on the surfactant monolayer. To assess the risk of such an inhalation, vapors from five solvents—halothane, chloroform, enflurane, acetone, and diethyl ether—were made to flow into the bubble of the surfactometer as it pulsated for 30 sec, i.e., during 10 pulsations. The vapors from halo-thane and chloroform, excellent solvents of dipalmitoyl-phosphatidylcholine (DPPC), had a destabilizing effect evidenced by the fact that surface tension at minimal bubble size increased from 0 to as high as 20 mN/m. When the vapors were replaced with a flow of room air, the pressure tracing promptly returned to normal. The concentration of halothane vapor, however, had to be at least 20%, a concentration much higher than that used for anesthesia, to have a destabilizing effect on pulmonary surfactant. Twenty-five percent enflurane vapor had a less pronounced yet conspicuous impact. With 25% acetone and diethyl ether vapors, poor solvents of DPPC, surface tension at minimal bubble size remained unaffected. We conclude that vapors of halothane and chloroform, if inhaled in high concentration, might instantaneously obliterate the stabilizing effect of pulmonary surfactant but that anesthetic concentrations of halothane have no effect.
Role of phosphatidylinositol 3-kinase in the development of hepatocyte preconditioning.

BACKGROUND & AIMS Ischemic preconditioning has been proved effective in reducing ischemia/reperfusion injury during liver surgery. However, the mechanisms involved are still poorly understood. Here, we have investigated the role of phosphatidylinositol 3-kinase (PI3K) in the signal pathway leading to hepatic preconditioning. METHODS PI3K activation was evaluated in isolated rat hepatocytes preconditioned by 10-minute hypoxia followed by 10-minute reoxygenation. RESULTS Hypoxic preconditioning stimulated phosphatidylinositol-3,4,5-triphosphate production and the phosphorylation of PKB/Akt, a downstream target of PI3K. Conversely, PI3K inhibition by wortmannin or LY294002 abolished hepatocyte tolerance against hypoxic damage induced by preconditioning. PI3K activation in preconditioned hepatocytes required the stimulation of adenosine A 2A receptors and was mimicked by adenosine A 2A receptors agonist CGS21680. In the cells treated with CGS21680, PI3K activation was prevented either by inhibiting adenylate cyclase and PKA with, respectively, 2,5-dideoxyadenosine and H89 or by blocking Galphai-protein and Src tyrosine kinase with, respectively, pertussis toxin and PP2. H89 also abolished the phosphorylation of adenosine A 2A receptors. However, the direct PKA activation by forskolin failed to stimulate PI3K. This suggested that PKA-phosphorylated adenosine A 2A receptors may activate PI3K by coupling it with Galphai-protein through Src. We also observed that, by impairing PI3K-mediated activation of phospholypase Cgamma (PLCgamma), wortmannin and LY294002 blocked the downstream transduction of preconditioning signals via protein kinase C (PKC) delta/ isozymes. CONCLUSIONS PI3K is activated following hepatocyte hypoxic preconditioning by the combined stimulation of adenosine A 2A receptors, PKA, Galphai protein, and Src. By regulating PKC-/delta-dependent signals, PI3K can play a key role in the development of hepatic tolerance to hypoxia/reperfusion.
Resilient Warrior: A Stress Management Group to Improve Psychological Health in Service Members

Background: Many veterans deployed after 9/11/2001 are impacted by subthreshold levels of post-traumatic stress, anxiety, or other psychological health problems that may interfere with successful reintegration. Conventional treatments, including medication and trauma-focused individual psychotherapies, may not be optimally adapted, accepted, or effective to treat these subsyndromal symptoms. Methods: We developed “Resilient Warrior,” a 4-session, group-based, mind-body stress-management and resilience program targeted to build skills and assessed whether its format was accessible and acceptable, and potentially efficacious, to support resilience among service members. Results: From April 2014 to October 2014, 15 participants (53.3% women; mean age=36.6 y; SD=6.2) were surveyed for program acceptability and feasibility and completed self-reported psychological health outcomes before and after program participation. The majority (71.4%) of participants reported that the program included the right number of sessions, and all of them reported that it was helpful and relevant and that they would recommend it to others. While changes in self-reported resilience were only marginal, participation was associated with improvements in depressive symptoms, perceived stress, anxiety, and general sense of self efficacy. Conclusion: These pilot data provide preliminary support that “Resilient Warrior,” a group-based, stress reduction and resilience program, may improve psychological health in service members even when delivered in community settings. Randomized controlled trials with longer follow-up periods are needed to establish efficacy and effectiveness for this program.
Investigating the Role of Identity in Writing Using Electronic Bulletin Boards

<p> Recent research has focused on the relationship between language and identity (Ivanic, 1998; Kanno & Norton, 2003). International students who come to Canada to learn English as a second language realize that to succeed in the academic community, they must be particularly adept at writing in English for academic purposes. This article addresses how using WebCT's electronic bulletin board to improve writing in English offers students opportunities for the development of student identities in ways that are not as prevalent in the traditional face-to-face classroom. More specifically, this article argues that the monologic and dialogic writing tasks that occur on the electronic bulletin board have important implications for student participation, motivation, and inter-cultural awareness. </p> <p>La recherche récente a mis l'accent sur la relation entre la langue et l'identité (Ivanic, 1998 ; Kanno et Norton, 2003). Des étudiants internationaux venant au Canada pour apprendre l'anglais comme langue seconde se rendent compte que, pour réussir dans une communauté académique, ils doivent savoir rédiger avec succès des textes anglais de nature académique. Cet article explore comment l'usage d'un babillard électronique de WebCT, visant l'amélioration de leur écriture dans une langue seconde, offre aux apprenants des occasions de développer leur identité d'une façon qui n'est pas aussi évidente dans une salle de classe traditionnelle. Plus spécifiquement, cet article soutient que l'écriture monologique et dialogique, rédigée sur le babillard électronique, entraîne des conséquences importantes pour la motivation, la participation et la reconnaissance interculturelle de la part des étudiants. </p>
Analysis of the Intestinal Lumen Microbiota in an Animal Model of Colorectal Cancer

Recent reports have suggested that multiple factors such as host genetics, environment and diet can promote the progression of healthy mucosa towards sporadic colorectal carcinoma. Accumulating evidence has additionally associated intestinal bacteria with disease initiation and progression. In order to examine and analyze the composition of gut microbiota in the absence of confounding influences, we have established an animal model of 1, 2-dimethylhydrazine (DMH)-induced colon cancer. Using this model, we have performed pyrosequencing of the V3 region of the 16S rRNA genes in this study to determine the diversity and breadth of the intestinal microbial species. Our findings indicate that the microbial composition of the intestinal lumen differs significantly between control and tumor groups. The abundance of Firmicutes was elevated whereas the abundance of Bacteroidetes and Spirochetes was reduced in the lumen of CRC rats. Fusobacteria was not detected in any of the healthy rats and there was no significant difference in observed Proteobacteria species when comparing the bacterial communities between our two groups. Interestingly, the abundance of Proteobacteria was higher in CRC rats. At the genus level, Bacteroides exhibited a relatively higher abundance in CRC rats compared to controls (14.92% vs. 9.22%, p<0.001). Meanwhile, Prevotella (55.22% vs. 26.19%), Lactobacillus (3.71% vs. 2.32%) and Treponema (3.04% vs. 2.43%), were found to be significantly more abundant in healthy rats than CRC rats (p<0.001, respectively). We also demonstrate a significant reduction of butyrate-producing bacteria such as Roseburia and Eubacterium in the gut microbiota of CRC rats. Furthermore, a significant increase in Desulfovibrio, Erysipelotrichaceae and Fusobacterium was also observed in the tumor group. A decrease in probiotic species such as Ruminococcus and Lactobacillus was likewise observed in the tumor group. Collectively, we can conclude that a significant difference in intestinal bacterial flora exists between healthy rats and CRC rats.
The Sydney multicenter study of Parkinson's disease: The inevitability of dementia at 20 years

After 20 years follow‐up of newly diagnosed patients with Parkinson's disease (PD), 100 of 136 (74%) have died. The mortality rate fell in the first 3 years of treatment, then rose compared to the general population, the standardized mortality ratio from 15 to 20 years reaching 3.1. Drug induced dyskinesia and end of dose failure were experienced by most patients, but the main current problems relate to the non‐levodopa responsive features of the disease. Dementia is present in 83% of 20‐year survivors. Dementia correlates with increasing age and probably reflects an interplay of multiple pathologies. Seventeen people with dementia had postmortems. Eight had diffuse Lewy bodies as the only cause of dementia, while others had mixed neuropathology. Only one person lives independently and 48% are in nursing homes. Excessive daytime sleepiness is noted in 70%, falls have occurred in 87%, freezing in 81%, fractures in 35%, symptomatic postural hypotension in 48%, urinary incontinence in 71%, moderate dysarthria in 81%, choking in 48%, and hallucinations in 74%. The challenge is to understand the cellular mechanisms underlying the diverse features of advanced PD that go far beyond a lack of dopamine. © 2008 Movement Disorder Society
Directed forgetting in implicit and explicit memory tests: A comparison of methods.

Directed forgetting has been studied by instructing Ss to forget either (a) an initial list or (b) individually selected words. Differential encoding was hypothesized to be responsible for word-method directed forgetting, and retrieval inhibition for list-method directed forgetting. In Experiments 1 and 2, directed forgetting was observed in recognition with the word method but not with the list method. Release from directed forgetting occurred in final recall after recognition but only with the list method. These results are interpreted in terms of a theoretical framework that integrates distinctive-relational processing theory with revised generation-recognition theory. In Experiments 1-3, predictions from that framework were generally well supported on implicit and explicit retention tests that provided the same stimulus conditions
Shape and Symmetry Induction for 3D Objects

Actions as simple as grasping an object or navigating around it require a rich understanding of that object's 3D shape from a given viewpoint. In this paper we repurpose powerful learning machinery, originally developed for object classification, to discover image cues relevant for recovering the 3D shape of potentially unfamiliar objects. We cast the problem as one of local prediction of surface normals and global detection of 3D reflection symmetry planes, which open the door for extrapolating occluded surfaces from visible ones. We demonstrate that our method is able to recover accurate 3D shape information for classes of objects it was not trained on, in both synthetic and real images.
A Survey: Time Travel in Deep Learning Space: An Introduction to Deep Learning Models and How Deep Learning Models Evolved from the Initial Ideas

This report will show the history of deep learning evolves. It will trace back as far as the initial belief of connectionism modelling of brain, and come back to look at its early stage realization: neural networks. With the background of neural network, we will gradually introduce how convolutional neural network, as a representative of deep discriminative models, is developed from neural networks, together with many practical techniques that can help in optimization of neural networks. On the other hand, we will also trace back to see the evolution history of deep generative models, to see how researchers balance the representation power and computation complexity to reach Restricted Boltzmann Machine and eventually reach Deep Belief Nets. Further, we will also look into the development history of modelling time series data with neural networks. We start with Time Delay Neural Networks and move further to currently famous model named Recurrent Neural Network and its extension Long Short Term Memory. We will also briefly look into how to construct deep recurrent neural networks. Finally, we will conclude this report with some interesting open-ended questions of deep neural networks.
Understanding affect in design: an outline conceptual framework

This paper provides an outline conceptual framework that may be helpful for those involved in the emerging area of ‘affective design’. Historically, the shift from cognitive approaches that eschewed emotions towards a more encompassing conceptual approach that includes affective or emotive processes is understandable. A basic understanding of concepts such as affect and emotion are required in order to address many questions such as how to design to evoke affect and how to predict user emotions? We utilize concepts from Activity Theory in order to understand the world of ‘feelings’. The latter involves several different levels and classes, principally those of affect, emotion and sentiment. Feelings involve important psychological processes, although they have received minimal attention within the mainstream cognitive frame until very recently. The intent of this paper is to provide a coherent conceptual frame for the discussions within the interaction design and HCI communities concerning such terms as emotional interfaces, hedonic design and affective design.
Spin wave based synapse and neuron for ultra low power neuromorphic computation system

In this work, we have proposed that the neural synapses and neurons can be realized by utilizing spin waves (SWs) as information carrier. The SWs is excited by spin torque nano-oscillator (STNO), and detected with several different physical mechanisms: 1) tunneling magnetic-resistance 2) spin pumping and 3) inverse spin hall effect. The proposed SWs based synapses and neurons can be further combined together to form a neuromorphic computation system with crossbar structure. Possible ultra low power consumption and ultra high speed are the advantage of our proposed SWs based synapses and neurons.
Acid-Tolerant Moderately Thermophilic Methanotrophs of the Class Gammaproteobacteria Isolated From Tropical Topsoil with Methane Seeps

Terrestrial tropical methane seep habitats are important ecosystems in the methane cycle. Methane oxidizing bacteria play a key role in these ecosystems as they reduce methane emissions to the atmosphere. Here, we describe the isolation and initial characterization of two novel moderately thermophilic and acid-tolerant obligate methanotrophs, assigned BFH1 and BFH2 recovered from a tropical methane seep topsoil habitat. The new isolates were strictly aerobic, non-motile, coccus-shaped and utilized methane and methanol as sole carbon and energy source. Isolates grew at pH range 4.2–7.5 (optimal 5.5–6.0) and at a temperature range of 30–60°C (optimal 51–55°C). 16S rRNA gene phylogeny placed them in a well-separated branch forming a cluster together with the genus Methylocaldum as the closest relatives (93.1–94.1% sequence similarity). The genes pmoA, mxaF, and cbbL were detected, but mmoX was absent. Strains BFH1 and BFH2 are, to our knowledge, the first isolated acid-tolerant moderately thermophilic methane oxidizers of the class Gammaproteobacteria. Each strain probably denotes a novel species and they most likely represent a novel genus within the family Methylococcaceae of type I methanotrophs. Furthermore, the isolates increase our knowledge of acid-tolerant aerobic methanotrophs and signify a previously unrecognized biological methane sink in tropical ecosystems.
Development Of A Hybrid Gait Orthosis: A Case Report

Abstract Objective: The purpose of this case study was to improve stability, posture, and speed of gait in an individual with paraplegia through the application of a hybrid system including trunk-hip-knee-ankle-foot orthosis (THKAFO) with lockable joints and multichannel functional electrical stimulation (FES) with implanted electrodes. Methods: Two hybrid orthoses were implemented and evaluated on a person with complete absence of motor function and sensation below the T-9 level spinal cord injury. The first hybrid was a modified isocentric reciprocal gait orthosis (IRGO) with the knees controlled by FES, the ankles fixed at neutral, and the hips coupled with a reciprocator. The second hybrid had a THKAFO instrumented with lockable joints using wrap-spring clutches at the hips and knees (THKAFO-LJ) that provided free extension and allowed for flexion only when disengaged by solenoids. A microprocessor-controlled stimulator provided muscle stimulation and activation signals for the solenoids. These two hybrid systems were compared with an FES-only system. Results: The IRGO hybrid system with the hip reciprocator engaged provided a stable gait with erect posture with minimal anterior trunk lean using only quad canes for support. However, the walking speed was slow, due to limited step length imposed by the reciprocator. The walking speed with the THKAFO-LJ hybrid system was significantly faster than that with the IRGO hybrid with the reciprocator engaged, and was comparable with the FES-only gait; however, it resulted in excessive anterior trunk lean. A walker with 2 wheels was required to maintain balance. Conclusion: The results point to the need for a hybrid system that allows for unencumbered hip and knee joint motion for stepping without excessive anterior trunk lean. Such a hybrid system could provide a reasonable speed in gait powered by muscle stimulation, without the usual joint motion constraints imposed by the bracing, while providing stability that is normally seen only with bracing. Further advantages would include reduction in required stimulation during standing and support phases of gait.
Researching transfronterizo literacies in Texas border colonias

Abstract This study examines literacies practiced in bilingual households located in emerging communities along the Texas–Mexico border known as border colonias. Drawing on theoretical notions of space as geographic and temporal, the simultaneity of global and local forces at work in colonias, and expressions of agency that are ‘in between’ accommodation and resistance, we focus on the forms and practices of literacy that bilingual families are engaging in to satisfy financial and religious needs in Spanish and English. Through interviews and home visits with parents in two colonias, this qualitative study found diverse and interesting uses of written Spanish that can support children's biliteracy development even as the use of written Spanish is discouraged in schools and parents are ambivalent about the use of Spanish literacy for academic purposes. We identify four themes – what children learn through Spanish; child language socialization; biliteracy and human capital; and demographic and economic change – and identify possibilities for learning and research among this understudied population.