bluuebunny/crossref_metadata_2025_split huggingface dataset:
Inferences on specificity recognition at the Malus×domestica gametophytic self-incompatibility system
Authors: Pratas Maria I. , Aguiar Bruno , Vieira Jorge , Nunes Vanessa , Teixeira Vanessa , Fonseca Nuno A. , Iezzoni Amy , van Nocker Steve , Vieira Cristina P. 
Published: January 2018

AbstractIn Malus × domestica (Rosaceae) the product of each SFBB gene (the pollen component of the gametophytic self-incompatibility (GSI) system) of a S-haplotype (the combination of pistil and pollen genes that are linked) interacts with a sub-set of non-self S-RNases (the pistil component), but not with the self S-RNase. To understand how the Malus GSI system works, we identified 24 SFBB genes expressed in anthers, and determined their gene sequence in nine M. domestica cultivars. Expression of these SFBBs was not detected in the petal, sepal, filament, receptacle, style, stigma, ovary or young leaf. For all SFBBs (except SFBB15), identical sequences were obtained only in cultivars having the same S-RNase. Linkage with a particular S-RNase was further established using the progeny of three crosses. Such data is needed to understand how other genes not involved in GSI are affected by the S-locus region. To classify SFBBs specificity, the amino acids under positive selection obtained when performing intra-haplotypic analyses were used. Using this information and the previously identified S-RNase positively selected amino acid sites, inferences are made on the S-RNase amino acid properties (hydrophobicity, aromatic, aliphatic, polarity, and size), at these positions, that are critical features for GSI specificity determination.
A scalable approach to the computation of invariant measures for high-dimensional Markovian systems
Authors: Gerber Susanne , Olsson Simon , Noé Frank , Horenko Illia 
Published: January 2018

AbstractThe Markovian invariant measure is a central concept in many disciplines. Conventional numerical techniques for data-driven computation of invariant measures rely on estimation and further numerical processing of a transition matrix. Here we show how the quality of data-driven estimation of a transition matrix crucially depends on the validity of the statistical independence assumption for transition probabilities. Moreover, the cost of the invariant measure computation in general scales cubically with the dimension - and is usually unfeasible for realistic high-dimensional systems. We introduce a method relaxing the independence assumption of transition probabilities that scales quadratically in situations with latent variables. Applications of the method are illustrated on the Lorenz-63 system and for the molecular dynamics (MD) simulation data of the α-synuclein protein. We demonstrate how the conventional methodologies do not provide good estimates of the invariant measure based upon the available α-synuclein MD data. Applying the introduced approach to these MD data we detect two robust meta-stable states of α-synuclein and a linear transition between them, involving transient formation of secondary structure, qualitatively consistent with previous purely experimental reports.
The antidepressant fluoxetine acts on energy balance and leptin sensitivity via BDNF
Authors: Scabia Gaia , Barone Ilaria , Mainardi Marco , Ceccarini Giovanni , Scali Manuela , Buzzigoli Emma , Dattilo Alessia , Vitti Paolo , Gastaldelli Amalia , Santini Ferruccio , Pizzorusso Tommaso , Maffei Lamberto , Maffei Margherita 
Published: January 2018

AbstractLeptin and Brain Derived Neurotrophic Factor (BDNF) pathways are critical players in body weight homeostasis. Noninvasive treatments like environmental stimulation are able to increase response to leptin and induce BDNF expression in the brain. Emerging evidences point to the antidepressant selective serotonin reuptake inhibitor Fluoxetine (FLX) as a drug with effects similar to environmental stimulation. FLX is known to impact on body weight, with mechanisms yet to be elucidated. We herein asked whether FLX affects energy balance, the leptin system and BDNF function. Adult lean male mice chronically treated with FLX showed reduced weight gain, higher energy expenditure, increased sensitivity to acute leptin, increased hypothalamic BDNF expression, associated to changes in white adipose tissue expression typical of “brownization”. In the Ntrk2tm1Ddg/J model, carrying a mutation in the BDNF receptor Tyrosine kinase B (TrkB), these effects are partially or totally reversed. Wild type obese mice treated with FLX showed reduced weight gain, increased energy output, and differently from untreated obese mice, a preserved acute response to leptin in terms of activation of the intracellular leptin transducer STAT3. In conclusion, FLX impacts on energy balance and induces leptin sensitivity and an intact TrkB function is required for these effects to take place.
Critical aggregation concentration for the formation of early Amyloid-β (1–42) oligomers
Authors: Novo Mercedes , Freire Sonia , Al-Soufi Wajih 
Published: January 2018

AbstractThe oligomers formed during the early steps of amyloid aggregation are thought to be responsible for the neurotoxic damage associated with Alzheimer’s disease. It is therefore of great interest to characterize this early aggregation process and the aggregates formed, especially for the most significant peptide in amyloid fibrils, Amyloid-β(1–42) (Aβ42). For this purpose, we directly monitored the changes in size and concentration of initially monomeric Aβ42 samples, using Fluorescence Correlation Spectroscopy. We found that Aβ42 undergoes aggregation only when the amount of amyloid monomers exceeds the critical aggregation concentration (cac) of about 90 nM. This spontaneous, cooperative process resembles surfactants self-assembly and yields stable micelle-like oligomers whose size (≈50 monomers, R
h
≈ 7–11 nm) and elongated shape are independent of incubation time and peptide concentration. These findings reveal essential features of in vitro amyloid aggregation, which may illuminate the complex in vivo process.
Time Course of Cultural Differences in Spatial Frequency Use for Face Identification
Authors: Estéphan Amanda , Fiset Daniel , Saumure Camille , Plouffe-Demers Marie-Pier , Zhang Ye , Sun Dan , Blais Caroline 
Published: January 2018

AbstractSeveral previous studies of eye movements have put forward that, during face recognition, Easterners spread their attention across a greater part of their visual field than Westerners. Recently, we found that culture’s effect on the perception of faces reaches mechanisms deeper than eye movements, therefore affecting the very nature of information sampled by the visual system: that is, Westerners globally rely more than Easterners on fine-grained visual information (i.e. high spatial frequencies; SFs), whereas Easterners rely more on coarse-grained visual information (i.e. low SFs). These findings suggest that culture influences basic visual processes; however, the temporal onset and dynamics of these culture-specific perceptual differences are still unknown. Here, we investigate the time course of SF use in Western Caucasian (Canadian) and East Asian (Chinese) observers during a face identification task. Firstly, our results confirm that Easterners use relatively lower SFs than Westerners, while the latter use relatively higher SFs. More importantly, our results indicate that these differences arise as early as 34 ms after stimulus onset, and remain stable through time. Our research supports the hypothesis that Westerners and Easterners initially rely on different types of visual information during face processing.
Manipulation of Pro-Sociality and Rule-Following with Non-invasive Brain Stimulation
Authors: Gross Jörg , Emmerling Franziska , Vostroknutov Alexander , Sack Alexander T. 
Published: January 2018

AbstractDecisions are often governed by rules on adequate social behaviour. Recent research suggests that the right lateral prefrontal cortex (rLPFC) is involved in the implementation of internal fairness rules (norms), by controlling the impulse to act selfishly. A drawback of these studies is that the assumed norms and impulses have to be deduced from behaviour and that norm-following and pro-sociality are indistinguishable. Here, we directly confronted participants with a rule that demanded to make advantageous or disadvantageous monetary allocations for themselves or another person. To disentangle its functional role in rule-following and pro-sociality, we divergently manipulated the rLPFC by applying cathodal or anodal transcranial direct current stimulation (tDCS). Cathodal tDCS increased participants’ rule-following, even of rules that demanded to lose money or hurt another person financially. In contrast, anodal tDCS led participants to specifically violate more often those rules that were at odds with what participants chose freely. Brain stimulation over the rLPFC thus did not simply increase or decrease selfishness. Instead, by disentangling rule-following and pro-sociality, our results point to a broader role of the rLPFC in integrating the costs and benefits of rules in order to align decisions with internal goals, ultimately enabling to flexibly adapt social behaviour.
Preferential amplification of a human mitochondrial DNA deletion in vitro and in vivo
Authors: Russell Oliver M. , Fruh Isabelle , Rai Pavandeep K. , Marcellin David , Doll Thierry , Reeve Amy , Germain Mitchel , Bastien Julie , Rygiel Karolina A. , Cerino Raffaele , Sailer Andreas W. , Lako Majlinda , Taylor Robert W. , Mueller Matthias , Lightowlers Robert N. , Turnbull Doug M. , Helliwell Stephen B. 
Published: January 2018

AbstractWe generated induced pluripotent stem cells (iPSCs) from patient fibroblasts to yield cell lines containing varying degrees of heteroplasmy for a m.13514 A > G mtDNA point mutation (2 lines) and for a ~6 kb single, large scale mtDNA deletion (3 lines). Long term culture of the iPSCs containing a single, large-scale mtDNA deletion showed consistent increase in mtDNA deletion levels with time. Higher levels of mtDNA heteroplasmy correlated with increased respiratory deficiency. To determine what changes occurred in deletion level during differentiation, teratomas comprising all three embryonic germ layers were generated from low (20%) and intermediate heteroplasmy (55%) mtDNA deletion clones. Regardless of whether iPSCs harbouring low or intermediate mtDNA heteroplasmy were used, the final levels of heteroplasmy in all teratoma germ layers increased to a similar high level (>60%). Thus, during human stem cell division, cells not only tolerate high mtDNA deletion loads but seem to preferentially replicate deleted mtDNA genomes. This has implications for the involvement of mtDNA deletions in both disease and ageing.
Arms race of temporal partitioning between carnivorous and herbivorous mammals
Authors: Wu Yonghua , Wang Haifeng , Wang Haitao , Feng Jiang 
Published: January 2018

AbstractReciprocal coevolutionary changes in predation and anti-predator behaviours have long been hypothesized, but evolutionary-scale evidence is rare. Here, we reconstructed the evolutionary-scale changes in the diel activity patterns of a predator-prey system (carnivorous and herbivorous mammals) based on a molecular phyloecological approach, providing evidence of long-term antagonistic coevolutionary changes in their diel activities. Our molecular reconstruction of diel activity patterns, which is supported by morphological evidence, consistently showed that carnivorous mammals were subjected to a shift from diurnality to nocturnality, while herbivorous mammals experienced a shift from nocturnality to diurnality during their evolutionary histories. A shift in the diel activity of the herbivores as a result of carnivore avoidance is hypothesized based on molecular, morphological and behavioural evidence, and our results suggest an evolutionary-scale arms race of diel activity shifts between carnivorous and herbivorous mammals.
Three-dimensional label-free imaging and analysis of Pinus pollen grains using optical diffraction tomography
Authors: Kim Geon , Lee SangYun , Shin Seungwoo , Park YongKeun 
Published: January 2018

AbstractThe structure of pollen grains is related to the reproductive function of the plants. Here, three-dimensional (3D) refractive index maps were obtained for individual conifer pollen grains using optical diffraction tomography (ODT). The 3D morphological features of pollen grains from pine trees were investigated using measured refractive index maps, in which distinct substructures were clearly distinguished and analyzed. Morphological and physiochemical parameters of the pollen grains were quantified from the obtained refractive index (RI) maps and used to quantitatively study the interspecific differences of pollen grains from different strains. Our results demonstrate that ODT can assess the structure of pollen grains. This label-free and rapid 3D imaging approach may provide a new platform for understanding the physiology of pollen grains.
Operation of a P300-based brain-computer interface in patients with Duchenne muscular dystrophy
Authors: Utsumi Kota , Takano Kouji , Okahara Yoji , Komori Tetsuo , Onodera Osamu , Kansaku Kenji 
Published: January 2018

AbstractA brain-computer interface (BCI) or brain-machine interface is a technology that enables the control of a computer and other external devices using signals from the brain. This technology has been tested in paralysed patients, such as those with cervical spinal cord injuries or amyotrophic lateral sclerosis, but it has not been tested systematically in Duchenne muscular dystrophy (DMD), which is a severe type of muscular dystrophy due to the loss of dystrophin and is often accompanied by progressive muscle weakness and wasting. Here, we investigated the efficacy of a P300-based BCI for patients with DMD. Eight bedridden patients with DMD and eight age- and gender-matched able-bodied controls were instructed to input hiragana characters. We used a region-based, two-step P300-based BCI with green/blue flicker stimuli. EEG data were recorded, and a linear discriminant analysis distinguished the target from other non-targets. The mean online accuracy of inputted characters (accuracy for the two-step procedure) was 71.6% for patients with DMD and 80.6% for controls, with no significant difference between the patients and controls. The P300-based BCI was operated successfully by individuals with DMD in an advanced stage and these findings suggest that this technology may be beneficial for patients with this disease.
Automatic Knee Osteoarthritis Diagnosis from Plain Radiographs: A Deep Learning-Based Approach
Authors: Tiulpin Aleksei , Thevenot Jérôme , Rahtu Esa , Lehenkari Petri , Saarakkala Simo 
Published: January 2018

AbstractKnee osteoarthritis (OA) is the most common musculoskeletal disorder. OA diagnosis is currently conducted by assessing symptoms and evaluating plain radiographs, but this process suffers from subjectivity. In this study, we present a new transparent computer-aided diagnosis method based on the Deep Siamese Convolutional Neural Network to automatically score knee OA severity according to the Kellgren-Lawrence grading scale. We trained our method using the data solely from the Multicenter Osteoarthritis Study and validated it on randomly selected 3,000 subjects (5,960 knees) from Osteoarthritis Initiative dataset. Our method yielded a quadratic Kappa coefficient of 0.83 and average multiclass accuracy of 66.71% compared to the annotations given by a committee of clinical experts. Here, we also report a radiological OA diagnosis area under the ROC curve of 0.93. Besides this, we present attention maps highlighting the radiological features affecting the network decision. Such information makes the decision process transparent for the practitioner, which builds better trust toward automatic methods. We believe that our model is useful for clinical decision making and for OA research; therefore, we openly release our training codes and the data set created in this study.
Alternative use of Bacillus subtilis spores: protection against environmental oxidative stress in human normal keratinocytes
Authors: Petruk Ganna , Donadio Giuliana , Lanzilli Mariamichela , Isticato Rachele , Monti Daria Maria 
Published: January 2018

AbstractInorganic trivalent arsenic is a major environmental pollutant and exposure to human results in many pathologies, including keratosis and carcinoma. Here, we analyzed the effects of B. subtilis spores on human normal keratinocytes in the presence of sodium arsenite oxidative stress. Pre-treatment of cells with spores before inducing oxidative stress was able to keep normal levels of intracellular ROS, GSH and lipid peroxidation, as well as to inhibit the activation of the MAPK cascade. Moreover, spores showed a positive effect on cell proliferation, probably due to their binding on the cell surface and the activation of intracellular catalases. We found that spores exert their protective effect by the nuclear translocation of Nrf-2, involved in the activation of stress response genes. This, in turn, resulted in a protective effect against sodium arsenite stress injury, as oxidative stress markers were reported to physiological levels when cells were stressed before incubating them with spores. Therefore, B. subtilis spores can be considered as a new agent to counteract oxidative stress on normal human keratinocytes.
Aerobic Exercise for a Duration of 90 min or Longer Per Week may Reduce the Atherogenic Index of Plasma
Authors: Shen Shiwei , Qi Huajin , He Xingxian , Lu Yun , Yang Chengjian , Li Feng , Wang Ling , Qiang Dongchang , Shui Kedong , Zhou Lin , Weng Xiaofeng , Shen Zhenhai , Wu Liuxin 
Published: January 2018

AbstractThe correlation between the weekly duration of aerobic exercise and atherogenic index of plasma (AIP) is still unknown. A cross-sectional study was conducted involving 27,827 middle-aged Chinese men who had health examinations in our hospital. The correlation between the duration of moderate-intensity aerobic exercise and AIP was determined. The mean AIP levels were 0.1166 ± 0.34475, 0.1167 ± 0.32637, and 0.0765 ± 0.32872 in the non-exercise (PA1), occasional exercise (PA2), and frequent exercise groups (PA3), respectively. Significantly higher AIP levels were observed in the PA1 and PA2 groups than the PA3 group, while no significant difference existed between the PA1 and PA2 groups. Physical activity significantly reduced the AIP after adjustment for age, body mass index, diastolic blood pressure, and fasting blood glucose and uric acid levels. In addition, the percentage of the population at high risk for atherosclerosis (AIP ≥ 0.21) was significantly lower in the PA3 group than the PA1 and PA2 groups. Moderate-intensity aerobic exercise at a weekly duration of 90 min or longer is associated with the reduction of AIP among middle-aged men in southeastern China.
Exploration of the role of the virulence factor ElrA during Enterococcus faecalis cell infection
Authors: Nunez Natalia , Derré-Bobillot Aurélie , Gaubert Stéphane , Herry Jean-Marie , Deschamps Julien , Wei Yu , Baranek Thomas , Si-Tahar Mustapha , Briandet Romain , Serror Pascale , Archambaud Cristel 
Published: January 2018

AbstractEnterococcus faecalis, an organism generally not pathogenic for healthy humans, has the potential to cause disease in susceptible hosts. While it seems to be equipped to interact with and circumvent host immune defense, most of the molecular and cellular mechanisms underlying the enterococcal infectious process remain elusive. Here, we investigated the role of the Enterococcal Leucine Rich protein A (ElrA), an internalin-like protein of E. faecalis also known as a virulence factor. ElrA was previously shown to prevent adhesion to macrophages. We show that ElrA does not inhibit the basic phagocytic process, but is able to prevent sensing and migration of macrophages toward E. faecalis. Presence or absence of FHL2, a eukaryotic partner of ElrA, does not affect the ElrA-dependent mechanism preventing macrophage migration. However, we highlight a partial contribution of FHL2 in ElrA-mediated virulence in vivo. Our results indicate that ElrA plays at least a dual role of which anti-phagocytic activity may contribute to dissemination of extracellular E. faecalis during infection.
Early modulation of intra-cortical inhibition during the observation of action mistakes
Authors: Cardellicchio Pasquale , Hilt Pauline M. , Olivier Etienne , Fadiga Luciano , D’Ausilio Alessandro 
Published: January 2018

AbstractErrors while performing an action are fundamental for learning. During interaction others’ errors must be monitored and taken into account to allow joint action coordination and imitation learning. This monitoring relies on an action observation network (AON) mainly based on parietofrontal recurrent circuits. Although different studies suggest that inappropriate actions may rapidly be inhibited during execution, little is known about the modulation of the AON when an action misstep is shown. Here we used single and paired pulse transcranial magnetic stimulation to assess corticospinal excitability, intracortical facilitation and intracortical inhibition at different time intervals (120, 180, 240 ms) after the visual presentation of a motor execution error. Results show a specific and early (120 ms) decrease of intracortical inhibition likely because of a significant mismatch between the observed erroneous action and observer’s expectations. Indeed, as proposed by the top-down predictive framework, the motor system may be involved in the generation of these error signals and our data show that this mechanism could rely on the early decrease of intracortical inhibition within the corticomotor system.
Bridging the connection between effective viscosity and electrical conductivity through water content in the upper mantle
Authors: Xu Yixian , Zhang Anqi , Yang Bo , Bao Xuewei , Wang Qinyan , Xia Jianghai , Yang Wencai 
Published: January 2018

AbstractUpper mantle viscosity plays a key role in understanding plate tectonics and is usually extrapolated from laboratory-based creep measurements of upper mantle conditions or constrained by modeling geodetic and post-seismic observations. At present, an effective method to obtain a high-resolution viscosity structure is still lacking. Recently, a promising estimation of effective viscosity was obtained from a transform derived from the results of magnetotelluric imaging. Here, we build a relationship between effective viscosity and electrical conductivity in the upper mantle using water content. The contribution of water content to the effective viscosity is isolated in a flow law with reference to relatively dry conditions in the upper mantle. The proposed transform is robust and has been verified by application to data synthesized from an intraoceanic subduction zone model. We then apply the method to transform an electrical conductivity cross-section across the Yangtze block and the North China Craton. The results show that the effective viscosity structure coincides well with that estimated from other independent datasets at depths of 40 to 80 km but differs slightly at depths of 100 to 200 km. We briefly discussed the potentials and associated problems for application.