bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Emergent Connectome inCaenorhabditis elegansEmbryogenesis
Authors:   DevoWorm Group, Alicea Bradly 
Published: June 2017

ABSTRACTThe relatively new field of connectomics provides us with a unique window into nervous system function. In the model organismCaenorhabditis elegans, this promise is even greater due to the relatively small number of cells (302) in its nervous system. While the adultC. elegansconnectome has been characterized, the emergence of these networks in development has yet to be established. In this paper, we approach this problem using secondary data describing the birth times of terminally-differentiated cells as they appear in the embryo and a connectomics model for nervous system cells in the adult hermaphrodite. By combining these two sources of data, we can better understand patterns that emerge in an incipient connectome. This includes identifying at what point in embryogenesis the cells of a connectome first comes into being, potentially observing some of the earliest neuron-neuron interactions, and making comparisons between the formally-defined connectome and developmental cell lineages. An analysis is also conducted to root terminally-differentiated cells in their developmental cell lineage precursors. This reveals subnetworks with different properties at 300 minutes of embryogenesis. Additional investigations reveal the spatial position of neuronal cells born during pre-hatch development, both within and outside the connectome model, in the context of all developmental cells in the embryo. Overall, these analyses reveal important information about the birth order of specific cells in the connectome, key building blocks of global connectivity, and how these structures correspond to key events in early development.
Detecting polygenic adaptation in admixture graphs
Authors: Racimo Fernando , Berg Jeremy J. , Pickrell Joseph K. 
Published: June 2017

AbstractAn open question in human evolution is the importance of polygenic adaptation: adaptive changes in the mean of a multifactorial trait due to shifts in allele frequencies across many loci. In recent years, several methods have been developed to detect polygenic adaptation using loci identified in genome-wide association studies (GWAS). Though powerful, these methods suffer from limited interpretability: they can detect which sets of populations have evidence for polygenic adaptation, but are unable to reveal where in the history of multiple populations these processes occurred. To address this, we created a method to detect polygenic adaptation in an admixture graph, which is a representation of the historical divergences and admixture events relating different populations through time. We developed a Markov chain Monte Carlo (MCMC) algorithm to infer branch-specific parameters reflecting the strength of selection in each branch of a graph. Additionally, we developed a set of summary statistics that are fast to compute and can indicate which branches are most likely to have experienced polygenic adaptation. We show via simulations that this method - which we call PolyGraph - has good power to detect polygenic adaptation, and applied it to human population genomic data from around the world. We also provide evidence that variants associated with several traits, including height, educational attainment, and self-reported unibrow, have been influenced by polygenic adaptation in different populations during human evolution.
LSD1/KDM1A Maintains Genome-wide Homeostasis of Transcriptional Enhancers
Authors: Agarwal Saurabh , Garay Patricia Marie , Porter Robert Scott , Brookes Emily , Murata-Nakamura Yumie , Macfarlan Todd S. , Ren Bing , Iwase Shigeki 
Published: June 2017

AbstractTranscriptional enhancers enable exquisite spatiotemporal control of gene expression in metazoans. Enrichment of mono-methylation of histone H3 lysine 4 (H3K4me1) is a major chromatin signature that distinguishes enhancers from gene promoters. Lysine Specific Demethylase 1 (LSD1, aka KDM1A), an enzyme specific for demethylating H3K4me2/me1, has been shown to “decommission” stem cell enhancers during the differentiation of mouse embryonic stem cells (mESC). However, the roles of LSD1 in undifferentiated mESC remain obscure. Here, we show that LSD1 occupies a large fraction of enhancers (63%) that are primed with binding of transcription factors (TFs) and H3K4me1 in mESC. In contrast, LSD1 is largely absent at latent enhancers, which are not yet primed by TF binding. Unexpectedly, LSD1 levels at enhancers exhibited a clear positive correlation with its substrate, H3K4me2 and enhancer activity. These enhancers gain additional H3K4 methylation upon the loss of LSD1 in mESC. The aberrant increase in H3K4me at enhancers was accompanied with increases in enhancer H3K27 acetylation and expression of enhancer RNAs (eRNAs) and their target genes. In post-mitotic neurons, loss of LSD1 resulted in premature activation of enhancers and genes that are normally induced after neuronal activation. These results demonstrate that LSD1 is a versatile suppressor of primed enhancers, and is involved in homeostasis of enhancer activity.
Role of inhibitory control in modulating focal seizure spread
Authors: Liou Jyun-you , Ma Hongtao , Wenzel Michael , Zhao Mingrui , Baird-Daniel Eliza , Smith Elliot H , Daniel Andy , Emerson Ronald , Yuste Rafael , Schwartz Theodore H , Schevon Catherine A 
Published: June 2017

AbstractFocal seizure propagation is classically thought to be spatially contiguous. However, distribution of seizures through a large-scale epileptic network has been theorized. Here, we used a multielectrode array, wide field calcium imaging, and two-photon calcium imaging to study focal seizure propagation pathways in an acute rodent neocortical 4-aminopyridine model. Although ictal neuronal bursts did not propagate beyond a 2-3 mm region, they were associated with hemisphere-wide field potential fluctuations and parvalbumin-positive interneuron activity outside the seizure focus. While bicuculline surface application enhanced contiguous seizure propagation, focal bicuculline microinjection at sites distant to the 4-aminopyridine focus resulted in epileptic network formation with maximal activity at the two foci. Our study suggests that both classical and epileptic network propagation can arise from localized inhibition defects, and that the network appearance can arise in the context of normal brain structure without requirement for pathological connectivity changes between sites.
Modeling stimulus-dependent variability improves decoding of population neural responses
Authors: Ghanbari Abed , Lee Christopher M. , Read Heather L. , Stevenson Ian H. 
Published: June 2017

AbstractNeural responses to repeated presentations of an identical stimulus often show substantial trial-to-trial variability. How the mean firing rate varies in response to different stimuli or during different movements (tuning curves) has been extensively modeled in a wide variety of neural systems. However, the variability of neural responses can also have clear tuning independent of the tuning in the mean firing rate. This suggests that the variability could contain information regarding the stimulus/movement beyond what is encoded in the mean firing rate. Here we demonstrate how taking variability into account can improve neural decoding. In a typical neural coding model spike counts are assumed to be Poisson with the mean response depending on an external variable, such as a stimulus or movement. Bayesian decoding methods then use the probabilities under these Poisson tuning models (the likelihood) to estimate the probability of each stimulus given the spikes on a given trial (the posterior). However, under the Poisson model, spike count variability is always exactly equal to the mean (Fano factor = 1). Here we use two alternative models - the Conway-Maxwell-Poisson (CMP) model and Negative Binomial (NB) model - to more flexibly characterize how neural variability depends on external stimuli. These models both contain the Poisson distribution as a special case but have an additional parameter that allows the variance to be greater than the mean (Fano factor >1) or, for the CMP model, less than the mean (Fano factor <1). We find that neural responses in primary motor (M1), visual (V1), and auditory (A1) cortices have diverse tuning in both their mean firing rates and response variability. Across cortical areas, we find that Bayesian decoders using the CMP or NB models improve stimulus/movement estimation accuracy by 4-12% compared to the Poisson model. Moreover, the uncertainty of the non-Poisson decoders more accurately reflects the magnitude of estimation errors. In addition to tuning curves that reflect average neural responses, stimulus-dependent response variability may be an important aspect of the neural code. Modeling this structure could, potentially, lead to improvements in brain machine interfaces.
Enhanced crude oil biodegradative potential of natural phytoplankton‐associated hydrocarbonoclastic bacteria
Authors: Thompson Haydn , Angelova Angelina , Bowler Bernard , Jones Martin , Gutierrez Tony 
Published: June 2017

SummaryPhytoplankton have been shown to harbour a diversity of hydrocarbonoclastic bacteria (HCB), yet it is not understood how these phytoplankton‐associated HCB would respond in the event of an oil spill at sea. Here, we assess the diversity and dynamics of the bacterial community associated with a natural population of marine phytoplankton under oil spill‐simulated conditions, and compare it to that of the free‐living (non phytoplankton‐associated) bacterial community. While the crude oil severely impacted the phytoplankton population and was likely conducive to marine oil snow formation, analysis of the MiSeq‐derived 16S rRNA data revealed dramatic and differential shifts in the oil‐amended communities that included blooms of recognized HCB (e.g., Thalassospira, Cycloclasticus), including putative novel phyla, as well as other groups with previously unqualified oil‐degrading potential (Olleya, Winogradskyella, and members of the inconspicuous BD7‐3 phylum). Notably, the oil biodegradation potential of the phytoplankton‐associated community exceeded that of the free‐living community, and it showed a preference to degrade substituted and non‐substituted polycyclic aromatic hydrocarbons. Our study provides evidence of compartmentalization of hydrocarbon‐degrading capacity in the marine water column, wherein HCB associated with phytoplankton are better tuned to degrading crude oil hydrocarbons than that by the community of planktonic free‐living bacteria.
Tracking a century of changes in microbial eukaryotic diversity in lakes driven by nutrient enrichment and climate warming
Authors: Capo Eric , Debroas Didier , Arnaud Fabien , Perga Marie‐Elodie , Chardon Cécile , Domaizon Isabelle 
Published: June 2017

SummaryHigh‐throughput sequencing of sedimentary DNA (sed‐DNA) was utilized to reconstruct the temporal dynamics of microbial eukaryotic communities (MECs) at a centennial scale in two re‐oligotrophicated lakes that were exposed to different levels of phosphorus enrichment. The temporal changes within the MECs were expressed in terms of richness, composition and community structure to investigate their relationships with two key forcing factors (i.e., nutrient enrichment and climate warming). Various groups, including Apicomplexa, Cercozoa, Chrysophyceae, Ciliophora, Chlorophyceae and Dinophyceae, responded to phosphorus enrichment levels with either positive or negative impacts on their richness and relative abundance. For both lakes, statistical modelling demonstrated that phosphorus concentration ([P]) was a dominant contributor to MECs modifications before the 1980s; after the mid‐80s, the contribution of air temperature changes increased and potentially surpassed the contribution of [P]. Co‐occurrence network analysis revealed that some clusters of taxa (i.e., modules) composed mainly of Dinophyceae and unclassified Alveolata were strongly correlated to air temperature in both lakes. Overall, our data showed that sed‐DNA constitutes a precious archive of information on past biodiversity changes, allowing the study of the dynamics of numerous eukaryotic groups that were not traditionally considered in paleo‐reconstructions.
Evidence base for Multiple Family Therapy (MFT) in non‐psychiatric conditions and problems: a review (part 2)
Authors: Cook‐Darzens Solange , Gelin Zoé , Hendrick Stéphan 
Published: June 2017

AbstractThis article provides an updated overview of the empirical literature regarding Multiple Family Therapy's (MFT) applications to non‐psychiatric conditions and problems. Although the evidence is not as strong for these disorders as for psychiatric disorders, the benefits of MFT approaches are apparent in the following areas: family management of several severe chronic medical illnesses; prevention of educational failure and exclusion; and treatment of marital distress. MFT research in non‐psychiatric settings has been faced with unique challenges that have mitigated the quality and quantity of outcome and process research produced over the past decade. Future research efforts should focus on: (1) stronger commitment to the evaluation of ongoing MFT programmes; (2) identification and manualization of major MFT programmes; (3) more Randomized Clinical Trials (RCTs) on the effectiveness of MFT programmes in community settings; and (4) higher priority for research on MFT's change processes and patterns of interaction.Practitioner points

The treatment of chronic physical diseases is optimized by involving family members, and MFT is a valuable way of doing so: workshops delivered in brief formats are most feasible
MFT should be considered for non‐psychiatric problems with the risk of isolation and stigmatization. The presence of other families sharing the same challenges is very useful
MFT practitioners should attempt to operationalize their MFT model and include an evaluation component in their therapeutic implementation as routine practice
The evidence base for Multiple Family Therapy in psychiatric disorders: a review (part 1)
Authors: Gelin Zoé , Cook‐Darzens Solange , Hendrick Stéphan 
Published: June 2017

AbstractThis article provides an updated and comprehensive overview of the empirical literature regarding Multiple Family Therapy (MFT)'s applications to major psychiatric disorders. It shows that MFT's strongest evidence base is for schizophrenia and chronic psychoses, making its psychoeducational model one of the best available practices for these disorders. There is also a growing body of evidence regarding the usefulness of MFT for mood disorders (particularly in children), eating disorders and alcohol‐substance abuse, but more controlled research is needed for these conditions. Other disorders such as anxiety disorders, autism and attention deficit hyperactivity disorder have been studied in a more anecdotal fashion and require more rigorous investigations. Future research efforts should focus on: (1) the specific advantage of MFT over other active treatment modalities, (2) the comparative efficacy of various MFT models for a given population, and (3) MFT's change processes.Practitioner points

McFarlane's psychoeducational MFT model is considered best practice for schizophrenia and other psychoses (and possibly mood disorders), facilitated by its manual‐based approach
The Maudsley model is a valuable treatment for adolescent anorexia nervosa. Family therapists who are less ED‐focused in their interventions can also use more generic MFT models
MFT practitioners should attempt to operationalize their MFT model and include an evaluation component in their therapeutic implementation
Norfolk Island as Region: A Pacific Puzzle
Authors: Wettenhall Roger 
Published: June 2017

AbstractCommonwealth‐enforced changes to the constitutional status of Norfolk Island through 2014–2016 have removed the island's autonomous identity as a self‐governing Australian territory. Its conversion to what is effectively a part of New South Wales, with the main instrument of governance titled ‘regional council’, is said to be based on a NSW local government model. However, it is difficult to view Norfolk Island as a region, and difficult also to trace the thinking that bestowed the form of the regional council on its governance. This article briefly summarizes the Norfolk changes. It then considers how the concept of the regional council has been used in NSW, and moves on to Queensland where the concept is better defined. It notes particularly how it has been applied in the case of the Torres Strait Islands, and asks whether that application might have relevance for Norfolk. It concludes with speculation about what might be a better approach in designing a system of governance suitable for Norfolk conditions.
Effect of different levels of grapeseed (Vitis vinifera) oil addition on physicochemical, microbiological and sensory properties of set‐type yoghurt
Authors: Mercan Emİn , Sert Durmuş , Karakavuk Emrah , Akın Nİhat 
Published: June 2017

The aim of this study was to determine the effect of different concentrations of grapeseed oil (GSO) addition (0.5%, 1% and 1.5% w/v) to yoghurt milk on survival of starter bacteria, and physicochemical, textural and sensory properties of set‐type yoghurts during the 21 days of storage. Moreover, radical scavenging activity (RSA) and total phenolic content (TPC) of yoghurts were investigated. Yoghurts containing GSO exhibited significantly higher TPC and RSA as compared to control yoghurts. The results obtained from this investigation show that GSO has a potential to be used as a food supplement to improve health‐promoting properties of yoghurt.
Quality of government and regional competition: A spatial analysis of subnational regions in the European Union
Authors: BUBBICO ANTONIO , ELKINK JOHAN A. , OKOLIKJ MARTIN 
Published: June 2017

AbstractBuilding on previous work on competition networks and governmental performance among British local governments, this article investigates the diffusion of government quality across subnational regions of Europe through strategic interaction with neighbouring regions or competitor regions more generally. The article demonstrates the presence of spatial interdependence using standard spatial regression models and controlling for common explanations of quality of government. In particular for regions with high levels of autonomy from the national government, there is clear adjustment in government quality to be seen in response to disparities with competitor regions. The article further investigates the intensity of this geographical effect separately in the north and south of Europe in order to estimate the potential for virtuous or vicious cycles of good governance in the two regions, respectively. It is found that while regions in the north develop relatively independently of each other but respond to competitive pressure across Europe, in the south regions demonstrate a higher level of local interdependence, increasing the possibility of virtuous cycles – but also of vicious ones.
When and why does education matter? Motivation and resource effects in political efficacy
Authors: RASMUSSEN STIG HEBBELSTRUP RYE , NØRGAARD ASBJØRN SONNE 
Published: June 2017

AbstractEducation increases political engagement because it bolsters motivations and cognition on the one hand, and relative resources on the other. However, personality traits have recently been found to partially confound the education effect. Focusing on internal and external political efficacy allows us to disentangle the different effects of education. It is argued in this article (a) that personal dispositions confound the cognitive and motivational effect of education, which is the predominant effect of education on internal efficacy, but not resource effects which are important for external but not internal efficacy; and (b) that resource effects are context‐dependent whereas cognitive and motivational effects are not. Accordingly, the article shows that the competitive context in which individuals find themselves conditions the effect of education on external, but not on internal, efficacy.
Preliminary Study on Determining the Sequence of Intersecting Lines by Fluorescence Technique
Authors: Li Biao , Ouyang Guo liang , Zhao Peng nan 
Published: June 2017

AbstractThe determination of the sequence of intersecting lines is an important part of questioned document examinations. A fluorescence technique was used to determine the sequence of heterogeneous intersecting lines produced using inkpad ink, stamp‐pad ink, ballpoint pens, gel pens, fountain pens, colorants of carbon paper, photocopiers, laser printers, and inkjet printers. A SteREO Discovery.V20 equipped with the ZEN Blue Lite software was chosen to perform the tests.As the results obtained from the study were positive under most conditions, the fluorescence technique was found to be very successful in determining the sequence of intersecting lines from ballpoint pen, gel pen, fountain pen, photocopier, laser and inkjet printers, and inkpad inks. The method was also successful in determining the sequence of intersecting lines from ballpoint pen, photocopier, laser printer, and stamp‐pad inks under most conditions. The technique was not successful in determining the order of crossing lines blending together.
Influences of Soaking Temperature and Storage Conditions on Hardening of Soybeans (Glycine max) and Red Kidney Beans (Phaseolus vulgaris)
Authors: Koriyama Takako , Sato Yoko , Iijima Kumiko , Kasai Midori 
Published: June 2017

AbstractThe influences of soaking treatment and storage conditions on the softening of cooked beans, namely, soybeans and red kidney beans, were investigated. It was revealed that the softening of fresh soybeans and fresh red kidney beans was suppressed during subsequent boiling after soaking treatment at 50 and 60 °C. Furthermore, in treated aged soybeans and red kidney beans that were subjected to storage at 30 °C/75% relative humidity for 6 mo and soaking treatment at 50 to 60 °C, the hardness during cooking was further amplified. This suggested that the mechanism of softening suppression differs depending on the influences of soaking and storage. Analysis of the pectin fraction in alcohol insoluble solid showed insolubilization of metal ions upon storage at high temperature and high humidity in both soybeans and red kidney beans, which suggests interaction between Ca ions and hemicellulose or cellulose as cell wall polysaccharides. The results of differential scanning calorimetry (DSC) showed that aged soybeans exhibited a shift in the thermal transition temperature of glycinin‐based protein to a higher temperature compared with fresh soybeans. From the results of DSC and scanning electron microscopy for aged red kidney beans, damaged starch is not conspicuous in the raw state after storage but is abundant upon soaking treatment. As for the influence of soaking at 60 °C, it can be suggested that its influence on cell wall crosslinking was large in soybeans and red kidney beans in both a fresh state and an aged state.