bluuebunny/crossref_metadata_2025_split huggingface dataset:
Widespread covariation of early environmental exposures and trait-associated polygenic variation
Authors: Krapohl E. , Hannigan L. J. , Pingault J.-B. , Patel H. , Kadeva N. , Curtis C. , Breen G. , Newhouse S. J. , Eley T. C. , O’Reilly P. F. , Plomin R. 
Published: October 2017

Significance
Environmental exposures are among the best predictors of health and educational outcomes. Models that estimate the effect of environmental exposures on developmental outcomes typically ignore genetic factors or focus on gene–environment interaction (whether individuals’ response to environmental exposures depends on their genotype). Here we test gene–environment correlation (whether individuals’ exposure to environments depends on their genotype). Using a method that tests specific genetic effects while controlling for background genetic effects, we estimate covariation between children’s genetic liability/propensity for core developmental outcomes and a wide range of environmental exposures. Findings suggest that genetic variants associated with traits, such as educational attainment, body mass index, and schizophrenia, also capture environmental risk and protective factors.
Speed of the bacterial flagellar motor near zero load depends on the number of stator units
Authors: Nord Ashley L. , Sowa Yoshiyuki , Steel Bradley C. , Lo Chien-Jung , Berry Richard M. 
Published: October 2017

Significance
The bacterial flagellar motor is a rotary molecular motor responsible for swimming, swarming, and chemotaxis in many species of bacteria. It generates torque by interactions between a rotor 50 nm in diameter and multiple stator units. We overturn the prevailing understanding of how stator units interact with each other by showing that motor speed is dependent on the number of stator units even at high speed near zero torque. We describe a method to measure torque and speed that uses synthetic hybrid stators driven by different ion types and show that, with simple rescaling, a single torque–speed curve describes the motor over widely varying values of the membrane voltage, driving ion type and ionic chemical potential gradient.
Importance of a species’ socioecology: Wolves outperform dogs in a conspecific cooperation task
Authors: Marshall-Pescini Sarah , Schwarz Jonas F. L. , Kostelnik Inga , Virányi Zsófia , Range Friederike 
Published: October 2017

Significance
A popular hypothesis is that during the course of domestication, dogs acquired a tamer temperament, showing increased tolerance and cooperative inclinations compared with their wolf relatives. This “domestication effect” is suggested to mirror how humans evolved a more tolerant and cooperative nature compared with chimpanzees. However, whereas wolves rely heavily on cooperation for hunting, pup-rearing, and territorial defense, dogs’ reliance on cooperation is much reduced. Here we compared similarly raised and kept wolves and dogs on a cooperative string-pulling task and found that, in line with the different socioecology of the two species, wolves better cooperate with their conspecifics than dogs. Furthermore, cooperation in wolves was more successful among partners of similar rank and with a close social bond.
Cliff-edge model predicts intergenerational predisposition to dystocia and Caesarean delivery
Authors: Mitteroecker Philipp , Windhager Sonja , Pavlicev Mihaela 
Published: October 2017

Significance
The cliff-edge model explains the evolutionary persistence of relatively high incidences of fetopelvic disproportion (FPD), the mismatch of fetal and maternal dimensions during human childbirth. It also predicts that FPD rates have increased evolutionarily since the regular use of Caesarean sections. Here we show that the model also explains why women born by Caesarean because of FPD are about twice as likely to develop FPD in their own childbirth compared with women born vaginally. This theoretical prediction of a complex epidemiological pattern lends support to the cliff-edge model and its underlying assumptions.
Vibrational coupling in plasmonic molecules
Authors: Yi Chongyue , Dongare Pratiksha D. , Su Man-Nung , Wang Wenxiao , Chakraborty Debadi , Wen Fangfang , Chang Wei-Shun , Sader John E. , Nordlander Peter , Halas Naomi J. , Link Stephan 
Published: October 2017

Significance
In this work, we provide evidence of vibrational coupling between the constituent atoms in a plasmonic molecule mediated by coherent substrate phonons. A simple coupled harmonic oscillator model provides fundamental insight into the optomechanical selection rules for the launching of vibrational modes. The coupling strength-dependent vibrational frequency shifts can be directly manipulated by precise tuning of the structure of the plasmonic molecule by using top-down lithography. This tunability paves the way for new strategies to design optomechanical devices based on metallic nanostructures.
Mib1 contributes to persistent directional cell migration by regulating the Ctnnd1-Rac1 pathway
Authors: Mizoguchi Takamasa , Ikeda Shoko , Watanabe Saori , Sugawara Michiko , Itoh Motoyuki 
Published: October 2017

Significance
Cell migration is involved in various biological processes, including animal development and cancer metastasis. Cells show either of two different types of migratory behavior: random or directional. We show that defects in mind bomb 1 (Mib1) ubiquitin ligase, an enzyme that adds ubiquitin to substrates, leads to an increase in random cell migration. Our study revealed that Mib1 ubiquitinates Ctnnd1, a positive regulator of the small GTPase Rac1, in cultured cells. We further found that Mib1-dependent Ctnnd1 ubiquitination decreases Ctnnd1-mediated activation of Rac1, which increases random cell migration, in cultured cells. Therefore, this study shows that Mib1 contributes to persistent directional cell migration, at least in part, by regulating the Ctnnd1–Rac1 pathway.
CREB coactivators CRTC2 and CRTC3 modulate bone marrow hematopoiesis
Authors: Kim Jeong-Ho , Hedrick Susan , Tsai Wen-Wei , Wiater Ezra , Le Lay John , Kaestner Klaus H. , Leblanc Mathias , Loar Andrew , Montminy Marc 
Published: October 2017

Significance
The second messenger cAMP mediates the salutary effects of prostaglandin E2 on hematopoietic stem cell (HSC) engraftment in bone marrow (BM). We found that disruption of the cAMP-inducible coactivators CRTC2 and CRTC3 in BM stromal cells promotes neutrophilia and HSC egress due to up-regulation of granulocyte colony-stimulating factor (G-CSF). CRTC2/3 were found to reduce G-CSF expression by inhibiting signaling through the transcription factor STAT3. These results demonstrate how cross-talk between cAMP and cytokine signaling pathways contributes to BM homeostasis.
Construing negotiation
Authors: Yau-ni Wan Jenny 
Published: October 2017

Abstract
The call centre conversation is a telephonic exchange of voices between the customer and the customer service representative (CSR). Both lexicogrammatical and prosodic features are used to construe emotional and attitudinal recognition. Studying these features can investigate how the call centre discourse is construed, and how the interpersonal meaning takes shape through the text. The spoken data are constructed by Filipino CSRs and American English-speaking customers. The findings show that participants tend to make specific paralinguistic voice quality choices to express their emotions in dialogue. This article first discusses the voice quality framework for its semiotic features in relation to interpersonal meaning, reviews previous voice quality studies and later delineates how voice quality relates to interpersonal meaning in the calls.
Gender role reversal in political debate?
Authors: Baider Fabienne , Kafetzi Evi 
Published: October 2017

AbstractFocusing on the Aubry – Hollande debate that took place in the context of the 2011 French socialist party primaries, we observe a possible reversal of gender stereotypes and examine word choices as well as more subtle cues such as interruptions, hedges, etc. If the debate could be described as a stereotypical gender role-reversal, we suggest that these cues point to a more complex picture than a gender reversal, and that the pragmatics structuring the dialogue might be interpreted as a pattern of challenger/champion. Moreover contrasting press articles and comment in online forums on the same debate we invoke a ‘peri-performativity concept’ to explain the differences in interpretations of the politicians’ performances, and conclude that perlocutionary dimensions can be reinterpreted by dominant discourses, (de)/(re)-constructing the performativity of speech acts.
Agency
Authors: Teubert Wolfgang 
Published: October 2017

AbstractAm I responsible for what I say and how I say it? Or is what I say just a random transformation of what I have heard so far? Is my agency as a discourse participant perhaps borrowed from the agency of discourse? This ties in with another dimension: Is the reality confronting us, a reality that surely includes the notion of agency, a mere discourse construct? For the cognitive and neural sciences, individual agency is only an epiphenomenon of the real world, while it is endorsed by folk psychology and cultural anthropology, having long been a cherished tradition of western discourse. Obviously, selfhood in some form is part of our nature, though we only have discourse to talk about it. Thus it appears as a phenomenon of our contingent culture.
Complexity Theory
Authors: Larsen-Freeman Diane 
Published: October 2017

Abstract
Interest in Complexity Theory (CT) is growing. This is not surprising, considering the state of the modern world – its dynamism, interconnectivity, mobile populations, changing climate, pattern of unintentional consequences, space-time compression, and technological innovation. These qualities make the non-reductionist, ecological, dynamic systems view that CT affords appropriate for our post-structural times. This is not to say that CT is without antecedents in history, some of which are mentioned in the chapter. I also relate how I have come to see CT as a metatheory. A metatheory has wide, transdisciplinary implications. Nevertheless, a metatheory still warrants object theories: in the case of second language development, a theory of language and a theory of learning. These are discussed here as thirty aphorisms. Also taken up are additional lessons afforded by the theory, specifically, overcoming dualities, the need to distinguish a focal system from its environment for the purposes of investigation, and how generalizability can be achieved.
Complexity Theory and Dynamic Systems Theory
Authors: de Bot Kees 
Published: October 2017

Abstract
In this contribution, the history and use of the two labels Complexity Theory (CT) and Dynamic Systems Theory (DST) are presented. Although they have a different ontology, there does not seem to be a reason for choosing one or the other to refer to the same phenomenon. I propose to use the label Complex Dynamic Systems Theory (CDST) as the general label to refer to the systems studied.
Neural complexity meets lexical complexity
Authors: Schumann John H. 
Published: October 2017

Abstract
Complexity Theory provides avenues for understanding many aspects of language acquisition and use, including the language neuroscientists use to label the brain and to think about its structure and functions. A major concern for neuroscience has been the mapping of structure to function. The tendency has been to seek one-to-one mappings between the two, but advances in research have revealed that the brain is characterized by degeneracy in which two or more architecturally different structures can serve the same function. Thus, the brain can operate with many-to-one mappings. This complexity in neural structure is met with the complexity of synonymy in the lexicon of human language that is used to describe the brain. In this chapter I discuss the relationship between degeneracy and complexity and draw an analogy between neural degeneracy and lexical complexity, specifically as seen in synonymy.
Titrated extract ofCentella asiaticaincreases hair inductive property through inhibition of STAT signaling pathway in three-dimensional spheroid cultured human dermal papilla cells
Authors: Choi Yeong Min , An Sungkwan , Lee Junwoo , Lee Jae Ho , Lee Jae Nam , Kim Young Sam , Ahn Kyu Joong , An In-Sook , Bae Seunghee 
Published: October 2017

AbstractDermal papilla (DP) is a pivotal part of hair follicle, and the smaller size of the DP is related with the hair loss. In this study, we investigated the effect of titrated extract of Centella asiatica (TECA) on hair growth inductive property on 3D spheroid cultured human DP cells (HDP cells). Significantly increased effect of TECA on cell viability was only shown in 3D sphered HPD cells, not in 2D cultured HDP cells. Also, TECA treatment increased the sphere size of HDP cells. The luciferase activity of STAT reporter genes and the expression of STAT-targeted genes, SOCS1 and SOCS3, were significantly decreased. Also, TECA treatment increased the expression of the hair growth-related signature genes in 3D sphered HDP cells. Furthermore, TECA led to downregulation of the level of phosphorylated STAT proteins in 3D sphered HDP cells. Overall, TECA activates the potential of hair inductive capacity in HDP cells.
Understanding the Impacts of Food Consumer Choice and Food Policy Outcomes
Authors: Lusk Jayson L , McCluskey Jill 
Published: October 2017

AbstractThe food consumer plays an increasingly prominent role in shaping the food and farming system. A better understanding of how public policies affect consumer choice and how those choices impact health, environment, and food security outcomes is needed. This paper addresses several key challenges we see for the future, including issues related to dietary‐related diseases and the efficacy of policies designed to improve dietary choices, trust in the food system, acceptance of new food and farm technologies, environmental impacts of food consumption, preferences for increased food quality, and issues related to food safety. We also identify some research challenges and barriers that exist when studying these issues, including data quality and availability, uncertainty in the underlying biological and physical sciences, and the challenges to welfare economics that are presented by behavioral economics. We also identify the unique role that economists can play in helping address these key societal challenges.
A challenge to identify an optical counterpart of the gravitational wave event GW151226 with Hyper Suprime-Cam
Authors: Utsumi Yousuke , Tominaga Nozomu , Tanaka Masaomi , Morokuma Tomoki , Yoshida Michitoshi , Asakura Yuichiro , Finet François , Furusawa Hisanori , Kawabata Koji S , Liu Wei , Matsubayashi Kazuya , Moritani Yuki , Motohara Kentaro , Nakata Fumiaki , Ohta Kouji , Terai Tsuyoshi , Uemura Makoto , Yasuda Naoki ,   on behalf of the J-GEM collaboration
Published: October 2017

Abstract
We present the results of detailed analysis of an optical imaging survey conducted using the Subaru/Hyper Suprime-Cam (HSC) that aimed to identify an optical counterpart to the gravitational wave event GW151226. In half a night, the i- and z-band imaging survey by HSC covered 63.5 deg2 of the error region, which contains about 7% of the LIGO localization probability, and the same field was observed in three different epochs. The detectable magnitude of the candidates in a differenced image is evaluated as i ∼ 23.2 mag for the requirement of at least two 5 σ detections, and 1744 candidates are discovered. Assuming a kilonova as an optical counterpart, we compare the optical properties of the candidates with model predictions. A red and rapidly declining light curve condition enables the discrimination of a kilonova from other transients, and a small number of candidates satisfy this condition. The presence of stellar-like counterparts in the reference frame suggests that the surviving candidates are likely to be flare stars. The fact that most of those candidates are in the galactic plane, |b| &lt; 5°, supports this interpretation. We also check whether the candidates are associated with the nearby GLADE galaxies, which reduces the number of contaminants even with a looser color cut. When a better probability map (with localization accuracy of ∼50 deg2) is available, kilonova searches of up to approximately 200 Mpc will become feasible by conducting immediate follow-up observations with an interval of 3–6 d.
Methods for addressing the protein-protein interaction between histone deacetylase 6 and ubiquitin
Authors: Passos Carolina dos S. , Deschamps Nathalie , Choi Yun , Cohen Robert E. , Perozzo Remo , Nurisso Alessandra , Simões-Pires Claudia A. 
Published: October 2017

AbstractHistone deacetylase 6 (HDAC6) is a cytoplasmic HDAC isoform able to remove acetyl groups from cellular substrates such as α-tubulin. In addition to the two deacetylase domains, HDAC6 has a C-terminal zinc-finger ubiquitin (Ub)-binding domain (ZnF-UBP) able to recognize free Ub. HDAC6-Ub interaction is thought to function in regulating the elimination of misfolded proteins during stress response through the aggresome pathway. Small molecules inhibiting deacetylation by HDAC6 were shown to reduce aggresomes, but the interplay between HDAC6 catalytic activity and Ub-binding function is not fully understood. Here we describe two methods to measure the HDAC6-Ub interaction in vitro using full-length HDAC6. Both methods were effective for screening inhibitors of the HDAC6-Ub protein-protein interaction independently of the catalytic activity. Our results suggest a potential role for the HDAC6 deacetylase domains in modulating HDAC6-Ub interaction. This new aspect of HDAC6 regulation can be targeted to address the roles of HDAC6-Ub interaction in normal and disease conditions.
Leveraging molecular QTL to understand the genetic architecture of diseases and complex traits
Authors: Hormozdiari Farhad , Gazal Steven , Geijn Bryce van de , Finucane Hilary , Ju Chelsea J.-T. , Loh Po-Ru , Schoech Armin , Reshef Yakir , Liu Xuanyao , O’Connor Luke , Gusev Alexander , Eskin Eleazar , Price Alkes L. 
Published: October 2017

AbstractThere is increasing evidence that many GWAS risk loci are molecular QTL for gene ex-pression (eQTL), histone modification (hQTL), splicing (sQTL), and/or DNA methylation (meQTL). Here, we introduce a new set of functional annotations based on causal posterior prob-abilities (CPP) of fine-mapped molecular cis-QTL, using data from the GTEx and BLUEPRINT consortia. We show that these annotations are very strongly enriched for disease heritability across 41 independent diseases and complex traits (average N = 320K): 5.84x for GTEx eQTL, and 5.44x for eQTL, 4.27-4.28x for hQTL (H3K27ac and H3K4me1), 3.61x for sQTL and 2.81x for meQTL in BLUEPRINT (all P ≤ 1.39e-10), far higher than enrichments obtained using stan-dard functional annotations that include all significant molecular cis-QTL (1.17-1.80x). eQTL annotations that were obtained by meta-analyzing all 44 GTEx tissues generally performed best, but tissue-specific blood eQTL annotations produced stronger enrichments for autoimmune dis-eases and blood cell traits and tissue-specific brain eQTL annotations produced stronger enrich-ments for brain-related diseases and traits, despite high cis-genetic correlations of eQTL effect sizes across tissues. Notably, eQTL annotations restricted to loss-of-function intolerant genes from ExAC were even more strongly enriched for disease heritability (17.09x; vs. 5.84x for all genes; P = 4.90e-17 for difference). All molecular QTL except sQTL remained significantly enriched for disease heritability in a joint analysis conditioned on each other and on a broad set of functional annotations from previous studies, implying that each of these annotations is uniquely informative for disease and complex trait architectures.
Weighted burden analysis of exome-sequenced case-control sample implicates synaptic genes in schizophrenia aetiology
Authors: Curtis David , Coelewij Leda , Liu Shou-Hwa , Humphrey Jack , Mott Richard 
Published: October 2017

AbstractA previous study of exome-sequenced schizophrenia cases and controls reported an excess of singleton, gene-disruptive variants among cases, concentrated in particular gene sets. The dataset included a number of subjects with a substantial Finnish contribution to ancestry. We have reanalysed the same dataset after removal of these subjects and we have also included non-singleton variants of all types using a weighted burden test which assigns higher weights to variants predicted to have a greater effect on protein function. We investigated the same 31 gene sets as previously and also 1454 GO gene sets. The reduced dataset consisted of 4225 cases and 5834 controls. No individual variants or genes were significantly enriched in cases but 13 out of the 31 gene sets were significant after Bonferroni correction and the “FMRP targets” set produced a signed log p value (SLP) of 7.1. The gene within this set with the highest SLP, equal to 3.4, wasFYN, which codes for a tyrosine kinase which phosphorylates glutamate metabotropic receptors and ionotropic NMDA receptors, thus modulating their trafficking, subcellular distribution and function. In the most recent GWAS of schizophrenia it was identified as a “prioritized candidate gene”. Two of the subunits of the NMDA receptor which are substrates ofFYNare coded for byGRIN1(SLP=1.7) andGRIN2B(SLP=2.1). Of note, for some sets there was a substantial enrichment of non-singleton variants. Of 1454 GO gene sets, 3 were significant after Bonferroni correction. Identifying specific genes and variants will depend on genotyping them in larger samples and/or demonstrating that they cosegregate with illness within pedigrees.
Csde1 cooperates with Strap to control translation of erythroid transcripts
Authors: Moore Kat S. , Yagci Nurcan , van Alphen Floris , Meijer Alexander B. , ‘t Hoen Peter A.C. , von Lindern Marieke 
Published: October 2017

AbstractErythropoiesis is regulated at many levels, including control of mRNA translation. Changing environmental conditions, such as hypoxia, or the availability of nutrients and growth factors, require a rapid response enacted by the enhanced or repressed translation of existing transcripts. Csde1 is an RNA-binding protein required for erythropoiesis and strongly upregulated in erythroblasts relative to other hematopoietic progenitors. The aim of this study is to identify the Csde1-containing protein complexes, and investigate their role in regulating the translation of Csde1-bound transcripts. We show that Strap, also called Unrip, was the protein most strongly associated with Csde1 in erythroblasts. Strap is a WD40 protein involved in signaling and RNA splicing, but its role is unknown when associated with Csde1. Reduced expression of Strap did not alter the pool of transcripts bound by Csde1. Instead, it reduced the mRNA and/or protein expression of several Csde1-bound transcript, that encode for proteins essential for translational regulation during hypoxia, such as Hmbs, eIF4g3 and Pabpc4. Also affected by Strap knockdown were Vim, a Gata-1 target crucial for erythrocyte enucleation, and Elavl1, which stabilizesGata-1mRNA. Thus, we found that the Csde1/Strap complex is at the crossroad of multiple pathways governing translation in erythroblasts.