bluuebunny/crossref_metadata_2025_split huggingface dataset:
Interaction patterns and individual dynamics shape the way we move in synchrony
Authors: Alderisio Francesco , Fiore Gianfranco , Salesse Robin N. , Bardy Benoît G. , Bernardo Mario di 
Published: July 2017

AbstractAn important open problem in Human Behaviour is to understand how coordination emerges in human ensembles. This problem has been seldom studied quantitatively in the existing literature, in contrast to situations involving dual interaction. Here we study motor coordination (or synchronisation) in a group of individuals where participants are asked to visually coordinate an oscillatory hand motion. We separately tested two groups of seven participants. We observed that the coordination level of the ensemble depends on group homogeneity, as well as on the pattern of visual couplings (who looked at whom). Despite the complexity of social interactions, we show that networks of coupled heterogeneous oscillators with different structures capture well the group dynamics. Our findings are relevant to any activity requiring the coordination of several people, as in music, sport or at work, and can be extended to account for other perceptual forms of interaction such as sound or feel.
Efficiency of ddRAD target enriched sequencing across spiny rock lobster species (Palinuridae: Jasus)
Authors: Souza Carla A. , Murphy Nicholas , Villacorta-Rath Cecilia , Woodings Laura N. , Ilyushkina Irina , Hernandez Cristian E. , Green Bridget S. , Bell James J. , Strugnell Jan M. 
Published: July 2017

AbstractDouble digest restriction site-associated DNA sequencing (ddRADseq) and target capture sequencing methods are used to explore population and phylogenetic questions in non-model organisms. ddRADseq offers a simple and reliable protocol for population genomic studies, however it can result in a large amount of missing data due to allelic dropout. Target capture sequencing offers an opportunity to increase sequencing coverage with little missing data and consistent orthologous loci across samples, although this approach has generally been applied to conserved markers for deeper evolutionary questions. Here, we combine both methods to generate high quality sequencing data for population genomic studies of all marine lobster species from the genus Jasus. We designed probes based on ddRADseq libraries of two lobster species (Jasus edwardsii and Sagmariasus verreauxi) and evaluated the captured sequencing data in five other Jasus species. We validated 4,465 polymorphic loci amongst these species using a cost effective sequencing protocol, of which 1,730 were recovered from all species, and 4,026 were present in at least three species. The method was also successfully applied to DNA samples obtained from museum specimens. This data will be further used to assess spatial-temporal genetic variation in Jasus species found in the Southern Hemisphere.
PyroTyping, a novel pyrosequencing-based assay for Mycobacterium tuberculosis genotyping
Authors: Molina-Moya B. , Lacoma A. , García-Sierra N. , Blanco S. , Haba L. , Samper S. , Ruiz-Manzano J. , Prat C. , Arnold C. , Domínguez J. 
Published: July 2017

AbstractWe developed a novel method, PyroTyping, for discrimination of Mycobacterium tuberculosis isolates combining pyrosequencing and IS6110 polymorphism. A total of 100 isolates were analysed with IS6110-restriction fragment length polymorphism (RFLP), spoligotyping, mycobacterial interspersed repetitive units – variable number tandem repeats (MIRU-VNTR), and PyroTyping. PyroTyping results regarding clustering or discrimination of the isolates were highly concordant with the other typing methods performed. PyroTyping is more rapid than RFLP and presents the same discriminatory power, thus, it may be useful for taking timely decisions for tuberculosis control.
A unique Cretaceous–Paleogene lineage of piranha-jawed pycnodont fishes
Authors: Vullo Romain , Cavin Lionel , Khalloufi Bouziane , Amaghzaz Mbarek , Bardet Nathalie , Jalil Nour-Eddine , Jourani Essaid , Khaldoune Fatima , Gheerbrant Emmanuel 
Published: July 2017

AbstractThe extinct group of the Pycnodontiformes is one of the most characteristic components of the Mesozoic and early Cenozoic fish faunas. These ray-finned fishes, which underwent an explosive morphological diversification during the Late Cretaceous, are generally regarded as typical shell-crushers. Here we report unusual cutting-type dentitions from the Paleogene of Morocco which are assigned to a new genus of highly specialized pycnodont fish. This peculiar taxon represents the last member of a new, previously undetected 40-million-year lineage (Serrasalmimidae fam. nov., including two other new genera and Polygyrodus White, 1927) ranging back to the early Late Cretaceous and leading to exclusively carnivorous predatory forms, unique and unexpected among pycnodonts. Our discovery indicates that latest Cretaceous–earliest Paleogene pycnodonts occupied more diverse trophic niches than previously thought, taking advantage of the apparition of new prey types in the changing marine ecosystems of this time interval. The evolutionary sequence of trophic specialization characterizing this new group of pycnodontiforms is strikingly similar to that observed within serrasalmid characiforms, from seed- and fruit-eating pacus to flesh-eating piranhas.
Cyclin-dependent Kinase 5: Novel role of gene variants identified in ADHD
Authors: Maitra Subhamita , Chatterjee Mahasweta , Sinha Swagata , Mukhopadhyay Kanchan 
Published: July 2017

AbstractCortical neuronal migration and formation of filamentous actin cytoskeleton, needed for development, normal cell growth and differentiation, are regulated by the cyclin-dependent kinase 5 (Cdk5). Attention deficit hyperactivity disorder (ADHD) is associated with delayed maturation of the brain and hence we hypothesized that cdk5 may have a role in ADHD. Eight functional CDK5 gene variants were analyzed in 848 Indo-Caucasoid individuals including 217 families with ADHD probands and 250 healthy volunteers. Only three variants, rs2069454, rs2069456 and rs2069459, predicted to affect transcription, were found to be bimorphic. Significant difference in rs2069456 “AC” genotype frequency was noticed in the probands, more specifically in the males. Family based analysis revealed over transmission of rs2069454 “C” and rs2069456 “A” to the probands. Quantitative trait analysis exhibited association of haplotypes with inattention, domain specific impulsivity, and behavioral problem, though no significant contribution was noticed on the age of onset of ADHD. Gene variants also showed significant association with cognitive function and co-morbidity. Probands having rs2069459 “TT” showed betterment during follow up. It may be inferred from this pilot study that CDK5 may affect ADHD etiology, possibly by attenuating synaptic neurotransmission and could be a useful target for therapeutic intervention.
Mapping the chromatin landscape and Blimp1 transcriptional targets that regulate trophoblast differentiation
Authors: Nelson Andrew C. , Mould Arne W. , Bikoff Elizabeth K. , Robertson Elizabeth J. 
Published: July 2017

AbstractTrophoblast stem cells (TSCs) give rise to specialized cell types within the placenta. However, the regulatory mechanisms that guide trophoblast cell fate decisions during placenta development remain ill defined. Here we exploited ATAC-seq and transcriptional profiling strategies to describe dynamic changes in gene expression and chromatin accessibility during TSC differentiation. We detect significantly increased chromatin accessibility at key genes upregulated as TSCs exit from the stem cell state. However, downregulated gene expression is not simply due to the loss of chromatin accessibility in proximal regions. Additionally, transcriptional targets recognized by the zinc finger transcriptional repressor Prdm1/Blimp1, an essential regulator of placenta development, were identified in ChIP-seq experiments. Comparisons with previously reported ChIP-seq datasets for primordial germ cell-like cells and E18.5 small intestine, combined with functional annotation analysis revealed that Blimp1 has broadly shared as well as cell type-specific functional activities unique to the trophoblast lineage. Importantly, Blimp1 not only silences TSC gene expression but also prevents aberrant activation of divergent developmental programmes. Overall the present study provides new insights into the chromatin landscape and Blimp1-dependent regulatory networks governing trophoblast gene expression.
Enhancer of Zeste homolog 2 (EZH2) induces epithelial-mesenchymal transition in endometriosis
Authors: Zhang Qi , Dong Peixin , Liu Xishi , Sakuragi Noriaki , Guo Sun-Wei 
Published: July 2017

AbstractEZH2, a subunit of the polycomb repressive complex 2 (PRC2) catalyzing trimethylation of histone H3 lysine 27 (H3K27), induces epithelial-mesenchymal transition (EMT) in cancers. However, whether EZH2 regulates EMT in endometriosis is unclear. Here, we show that EZH2 expression, along with its associated PRC2 proteins, is significantly elevated in ectopic and eutopic endometrium from women with endometriosis as compared with control endometrium. EZH2 knockdown or inhibition restored the epithelial phenotypes of endometriotic epithelial cells, concomitant with the upregulation of E-cadherin and downregulation of vimentin and transcription factors (Snail and Slug) as well as reduced cellular migratory and invasive propensity. Conversely, overexpression of EZH2 induced the expression of Snail, Slug and vimentin and suppresses E-cadherin expression. In vivo administration of 3-Deazaneplanocin A (DZNep), an EZH2 inhibitor, significantly inhibited the growth of endometriotic lesions and improved generalized hyperalgesia, along with attenuated EMT and reduced fibrosis in endometriosis. Notably, platelets induced EZH2 upregulation and increased H3K27 and H3K9 trimethylation levels in endometriotic epithelial cells. These data identify EZH2 as a novel driver of EMT in endometriosis, implicates the link between wound healing and epigenetic changes in the context of endometriosis, and underscore the role of platelets in the development of endometriosis.
Memory-type ST2+CD4+ T cells participate in the steroid-resistant pathology of eosinophilic pneumonia
Authors: Mato Naoko , Hirahara Kiyoshi , Ichikawa Tomomi , Kumagai Jin , Nakayama Masayuki , Yamasawa Hideaki , Bando Masashi , Hagiwara Koichi , Sugiyama Yukihiko , Nakayama Toshinori 
Published: July 2017

AbstractThe lung develops an unique epithelial barrier system to protect host from continuous invasion of various harmful particles. Interleukin (IL-)33 released from epithelial cells in the lung drives the type 2 immune response by activating ST2− expressed immune cells in various allergic diseases. However, the involvement of memory-type ST2+CD4+ T cells in such lung inflammation remains unclear. Here we demonstrated that intratracheal administration of IL-33 resulted in the substantial increase of numbers of tissue-resident memory-type ST2+CD4+ T cells in the lung. Following enhanced production of IL-5 and IL-13, eosinophilic lung inflammation sequentially developed. IL-33-mediated eosinophilic lung inflammation was not fully developed in T cell-deficient Foxn1
nu
mice and NSG mice. Dexamethasone treatment showed limited effects on both the cell number and function of memory-type ST2+CD4+ T cells. Thus our study provides novel insight into the pathogenesis of eosinophilic lung disease, showing that memory-type ST2+CD4+ T cells are involved in IL-33-induced eosinophilic inflammation and elicited steroid-resistance.
Scheduled feeding restores memory and modulates c-Fos expression in the suprachiasmatic nucleus and septohippocampal complex
Authors: Ruby Norman F. , Fisher Nathan , Patton Danica F. , Paul Matthew J. , Fernandez Fabian , Heller H. Craig 
Published: July 2017

AbstractDisruptions in circadian timing impair spatial memory in humans and rodents. Circadian-arrhythmic Siberian hamsters (Phodopus sungorus) exhibit substantial deficits in spatial working memory as assessed by a spontaneous alternation (SA) task. The present study found that daily scheduled feeding rescued spatial memory deficits in these arrhythmic animals. Improvements in memory persisted for at least 3 weeks after the arrhythmic hamsters were switched back to ad libitum feeding. During ad libitum feeding, locomotor activity resumed its arrhythmic state, but performance on the SA task varied across the day with a peak in daily performance that corresponded to the previous daily window of food anticipation. At the end of scheduled feeding, c-Fos brain mapping revealed differential gene expression in entrained versus arrhythmic hamsters in the suprachiasmatic nucleus (SCN) that paralleled changes in the medial septum and hippocampus, but not in other neural structures. These data show that scheduled feeding can improve cognitive performance when SCN timing has been compromised, possibly by coordinating activity in the SCN and septohippocampal pathway.
Direct estimation of the global distribution of vertical velocity within cirrus clouds
Authors: Barahona Donifan , Molod Andrea , Kalesse Heike 
Published: July 2017

AbstractCirrus clouds determine the radiative balance of the upper troposphere and the transport of water vapor across the tropopause. The representation of vertical wind velocity, W, in atmospheric models constitutes the largest source of uncertainty in the calculation of the cirrus formation rate. Using global atmospheric simulations with a spatial resolution of 7 km we obtain for the first time a direct estimate of the distribution of W at the scale relevant for cirrus formation, validated against long-term observations at two different ground sites. The standard deviation in W, σ
w
, varies widely over the globe with the highest values resulting from orographic uplift and convection, and the lowest occurring in the Arctic. Globally about 90% of the simulated σ
w
values are below 0.1 m s−1 and about one in 104 cloud formation events occur in environments with σ
w
> 0.8 m s−1. Combining our estimate with reanalysis products and an advanced cloud formation scheme results in lower homogeneous ice nucleation frequency than previously reported, and a decreasing average ice crystal concentration with decreasing temperature. These features are in agreement with observations and suggest that the correct parameterization of σ
w
is critical to simulate realistic cirrus properties.
Image-Based Chemical Structure Determination
Authors: Ofner Johannes , Brenner Florian , Wieland Karin , Eitenberger Elisabeth , Kirschner Johannes , Eisenmenger-Sittner Christoph , Török Szilvia , Döme Balazs , Konegger Thomas , Kasper-Giebl Anne , Hutter Herbert , Friedbacher Gernot , Lendl Bernhard , Lohninger Hans 
Published: July 2017

AbstractChemical imaging is a powerful tool for understanding the chemical composition and nature of heterogeneous samples. Recent developments in elemental, vibrational, and mass-spectrometric chemical imaging with high spatial resolution (50–200 nm) and reasonable timescale (a few hours) are capable of providing complementary chemical information about various samples. However, a single technique is insufficient to provide a comprehensive understanding of chemically complex materials. For bulk samples, the combination of different analytical methods and the application of statistical methods for extracting correlated information across different techniques is a well-established and powerful concept. However, combined multivariate analytics of chemical images obtained via different imaging techniques is still in its infancy, hampered by a lack of analytical methodologies for data fusion and analysis. This study demonstrates the application of multivariate statistics to chemical images taken from the same sample via various methods to assist in chemical structure determination.
In vivo Raman spectral analysis of impaired cervical remodeling in a mouse model of delayed parturition
Authors: O’Brien Christine M. , Herington Jennifer L. , Brown Naoko , Pence Isaac J. , Paria Bibhash C. , Slaughter James C. , Reese Jeff , Mahadevan-Jansen Anita 
Published: July 2017

AbstractMonitoring cervical structure and composition during pregnancy has high potential for prediction of preterm birth (PTB), a problem affecting 15 million newborns annually. We usein vivoRaman spectroscopy, a label-free, light-based method that provides a molecular fingerprint to non-invasively investigate normal and impaired cervical remodeling. Prostaglandins stimulate uterine contractions and are clinically used for cervical ripening during pregnancy. Deletion of cyclooxygenase-1 (Cox-1), an enzyme involved in production of these prostaglandins, results in delayed parturition in mice. Contrary to expectation, Cox-1 null mice displayed normal uterine contractility; therefore, this study sought to determine whether cervical changes could explain the parturition differences in Cox-1 null mice and gestation-matched wild type (WT) controls. Raman spectral changes related to extracellular matrix proteins, lipids, and nucleic acids were tracked over pregnancy and found to be significantly delayed in Cox-1 null mice at term. A cervical basis for the parturition delay was confirmed by otherex vivotests including decreased tissue distensibility, hydration, and elevated progesterone levels in the Cox-1 null mice at term. In conclusion,in vivoRaman spectroscopy non-invasively detected abnormal remodeling in the Cox-1 null mouse, and clearly demonstrated that the cervix plays a key role in their delayed parturition.
Antisymmetry of oceanic eddies across the Kuroshio over a shelfbreak
Authors: Liu Yu , Dong Changming , Liu Xiaohui , Dong Jihai 
Published: July 2017

AbstractFrom the analysis of oceanic eddies detected in the drifter trajectories of the Global Drifter Program (GDP) data set, it was found that oceanic eddies are asymmetrically distributed across the Kuroshio in the East China Sea: predominant cyclonic (anticyclonic) eddies are on the western (eastern) sides of Kuroshio. This distribution is confirmed by high-resolution numerical modeling output as well. Most of these eddies are 5~20 km in radius, less than the local first baroclinic deformation radius, thus categorized as submesoscale. The generation mechanism of these submesoscale eddies is speculated to be related to the horizontal velocity shear of the Kuroshio when it flows northeastward along the shelf break in the East China Sea. The budget analysis of eddy kinetic energy shows that both the horizontal shear and vertical buoyancy flux are important energy sources for eddy generation on the two sides of Kuroshio axis. The finding highlights the unique feature of oceanic eddies along the western boundary currents.
Isotopic analyses suggest mammoth and plant in the diet of the oldest anatomically modern humans from far southeast Europe
Authors: Drucker Dorothée G. , Naito Yuichi I. , Péan Stéphane , Prat Sandrine , Crépin Laurent , Chikaraishi Yoshito , Ohkouchi Naohiko , Puaud Simon , Lázničková-Galetová Martina , Patou-Mathis Marylène , Yanevich Aleksandr , Bocherens Hervé 
Published: July 2017

AbstractRelatively high 15N abundances in bone collagen of early anatomically modern humans in Europe have often been interpreted as a specific consumption of freshwater resources, even if mammoth is an alternative high 15N prey. At Buran-Kaya III, access to associated fauna in a secured archaeological context and application of recently developed isotopic analyses of individuals amino acids offer the opportunity to further examine this hypothesis. The site of Buran-Kaya III is located in south Crimea and has provided a rich archaeological sequence including two Upper Palaeolithic layers, from which human fossils were retrieved and directly dated as from 37.8 to 33.1 ka cal BP. Results from bulk collagen of three human remains suggests the consumption of a high 15N prey besides the contribution of saiga, red deer, horse and hare, whose butchered remains were present at the site. In contrast to bulk collagen, phenylalanine and glutamic acid 15N abundances reflect not only animal but also plant protein contributions to omnivorous diet, and allow disentangling aquatic from terrestrial resource consumption. The inferred human trophic position values point to terrestrial-based diet, meaning a significant contribution of mammoth meat, in addition to a clear intake of plant protein.
Kindlin-2 could influence breast nodule elasticity and improve lymph node metastasis in invasive breast cancer
Authors: Xue Xiaowei , Li Junlai , Wan Wenbo , Shi Xianquan , Zheng Yiqiong 
Published: July 2017

AbstractThis study investigated the relationship between quantitative parameters of shear wave elastography (SWE, maximum elasticity [Emax], minimum elasticity [Emin], mean elasticity [Emean]), collagen intensity and Kindlin-2 expression in benign and malignant breast nodules, and if Kindlin-2 expression is related with lymph node metastasis. A total of 102 breast nodules from 102 patients were included in our study who underwent ultrasound elastography before surgery or core needle biopsy. There was a significant difference between benign and malignant breast nodules in Emax, Emean, collagen intensity and Kindlin-2 expression, but it had no difference in Emin. Collagen intensity and Kindlin-2 expression both correlated positively with Emax, but not with Emean. Among 38 malignant breast nodules, the average Emax of the metastasis group was higher than that of the non-metastasis group, but it had no statistical significance. Compared with the non-metastasis group, Kindlin-2 expression was considerably higher in the metastasis group. However, there was no difference in collagen intensity between the metastasis group and the non-metastasis group. In conclusion, Kindlin-2 and collagen might contribute to breast nodule elasticity through molecular mechanisms. In breast cancer, overexpression of Kindlin-2 might be a risk factor for lymph node metastasis.
Training-induced dynamics of accuracy and precision in human motor control
Authors: Kumar Abhishek , Tanaka Yuto , Grigoriadis Anastasios , Grigoriadis Joannis , Trulsson Mats , Svensson Peter 
Published: July 2017

AbstractThe study investigated the dynamic changes in accuracy and precision during a simple oral and digital motor task involving a controlled and a ballistic force. Eighteen healthy participants participated in four experimental sessions during which they performed one hundred trials of targeting a controlled (low/high hold force) and a ballistic force during an oral and a digital motor task (OMT and DMT). Accuracy and precision across one hundred trials were calculated and subjected to segmented linear regression analysis. Repeated performance of controlled forces show a significant dynamic change in accuracy during initial stage of targeting high hold forces during OMT and a significant dynamic change in both accuracy and precision during final stage of targeting high hold forces during DMT. Repeated performance of ballistic force showed a significant dynamic change in both accuracy and precision during final stage of targeting high hold force forces during OMT and a significant dynamic change in accuracy during the initial stages of targeting high hold force during the DMT. The findings indicate a subtle degree of dissociation between accuracy and precision in terms of dynamic modulation of forces due to repeated performance of both OMT and DMT.