bluuebunny/crossref_metadata_2025_split huggingface dataset:
ARF5/MONOPTEROS directly regulates miR390 expression in theArabidopsis thalianaprimary root meristem
Authors: Dastidar Mouli Ghosh , Scarpa Andrea , Mägele Ira , Ruiz-Duarte Paola , von Born Patrick , Bald Lotte , Jouannet Virginie , Maizel Alexis 
Published: November 2018

SUMMARYThe root meristem is organized around a quiescent centre surrounded by stem cells that generate all cell types of the root. In the transit amplifying compartment progeny of stem cells further divide prior to differentiation. Auxin controls the size of this transit-amplifying compartment via Auxin Response Factors (ARF) that interact with Auxin Response Elements (AuxRE) in the promoter of their targets. The microRNA miR390 regulates abundance of ARF2, ARF3 and ARF4 by triggering the production of trans-acting (ta)-siRNA fromTAS3. This miR390/TAS3/ARF regulatory module confers sensitivity and robustness to auxin responses in diverse developmental contexts. Here, we show that miR390 is expressed in the transit-amplifying compartment of the root meristem where it modulates response to auxin. A single AuxRE bound by ARF5/MONOPTEROS (MP) in miR390 promoter is necessary for miR390 expression in this compartment. We show that interfering withARF5/MPdependent auxin signaling attenuates miR390 expression in the transit-amplifying compartment. Our results show that ARF5/MP regulates directly the expression of miR390 in the basal root meristem. We propose that ARF5, miR390 and the ta-siRNAs-regulated ARFs are necessary to maintain the size of the transit-amplifying region of the meristem.One sentence summaryThe expression of miR390 in the Arabidopsis basal root meristem is controlled by ARF5/MONOPTEROS.
Impacts of Deep-Sea Mining on Microbial Ecosystem Services
Authors: Orcutt Beth N. , Bradley James , Brazelton William J. , Estes Emily R. , Goordial Jacqueline M. , Huber Julie A. , Jones Rose M. , Mahmoudi Nagissa , Marlow Jeffrey J. , Murdock Sheryl , Pachiadaki Maria 
Published: November 2018

ABSTRACTInterest in extracting mineral resources from the seafloor through deep-sea mining has accelerated substantially in the past decade, driven by increasing consumer demand for various metals like copper, zinc, manganese, cobalt and rare earth elements. While there are many on-going discussions and studies evaluating potential environmental impacts of deep-sea mining activities, these focus primarily on impacts to animal biodiversity. The microscopic spectrum of life on the seafloor and the services that this microbial realm provides in the deep sea are rarely considered explicitly. In April 2018, a community of scientists met to define the microbial ecosystem services that should be considered when assessing potential impacts of deep-sea mining, and to provide recommendations for how to evaluate these services. Here we show that the potential impacts of mining on microbial ecosystem services in the deep sea vary substantially, from minimal expected impact to complete loss of services that cannot be remedied by protected area offsets. We conclude by recommending that certain types of ecosystems should be “off limits” until initial characterizations can be performed, and that baseline assessments of microbial diversity, biomass, and biogeochemical function need to be considered in environmental impact assessments of all potential instances of deep-sea mining.
Promoter-intrinsic and local chromatin features determine gene repression in lamina-associated domains
Authors: Leemans Christ , van der Zwalm Marloes , Brueckner Laura , Comoglio Federico , van Schaik Tom , Pagie Ludo , van Arensbergen Joris , van Steensel Bas 
Published: November 2018

AbstractIt is largely unclear whether genes that are naturally embedded in lamina associated domains (LADs) are inactive due to their chromatin environment, or whether LADs are merely secondary to the lack of transcription. We show that hundreds of human promoters become active when moved from their native LAD position to a neutral context in the same cells, indicating that LADs form a repressive environment. Another set of promoters inside LADs is able to "escape" repression, although their transcription elongation is attenuated. By inserting reporters into thousands of genomic locations, we demonstrate that these escaper promoters are intrinsically less sensitive to LAD repression. This is not simply explained by promoter strength, but by the interplay between promoter sequence and local chromatin features that vary strongly across LADs. Enhancers also differ in their sensitivity to LAD chromatin. This work provides a general framework for the systematic understanding of gene regulation by repressive chromatin.HighlightsTwo promoter transplantation strategies elucidate the regulatory role of LAD chromatinLADs are generally repressive, but also highly heterogeneousLADs can impede both promoter activity and transcription elongationPromoters vary intrinsically in their sensitivity to LAD repression
Photoperiod-dependent expression of MicroRNA in Drosophila
Authors: Pegoraro Mirko , Tauber Eran 
Published: November 2018

ABSTRACTLike many other insects in temperate regions, Drosophila melanogaster exploits the photoperiod shortening that occurs during the autumn as an important cue to trigger a seasonal response. Flies survives the winter by entering a state of reproductive arrest (diapause), which drives relocation of resources from reproduction to survival. Here, we profiled the expression of microRNA (miRNA) in long and short photoperiods and identified seven differentially expressed miRNAs (dme-mir-2b, dme-mir-11, dme-mir-34, dme-mir-274, dme-mir-184, dme-mir-184* and dme-mir-285). Misexpression of dme-mir-2b, dme-mir-184 and dme-mir-274 in pigment-dispersing factor-expressing neurons largely disrupted the normal photoperiodic response, suggesting that these miRNAs play functional roles in photoperiodic timing. We also analyzed the targets of photoperiodic miRNA by both computational predication and by Argonaute-1- mediated immunoprecipitation of long- and short-day RNA samples. Together with global transcriptome profiling, our results expand existing data on other Drosophila species, identifying genes and pathways that are differentially regulated in different photoperiods and reproductive status. Our data suggest that post-transcriptional regulation by miRNA is an important facet of photoperiodic timing.
Exome sequencing identifies high-impact trait-associated alleles enriched in Finns
Authors: Locke Adam E , Meltz Steinberg Karyn , Chiang Charleston WK , Service Susan K , Havulinna Aki S , Stell Laurel , Pirinen Matti , Abel Haley J , Chiang Colby C , Fulton Robert S , Jackson Anne U , Kang Chul Joo , Kanchi Krishna L , Koboldt Daniel C , Larson David E , Nelson Joanne , Nicholas Thomas J , Pietilä Arto , Ramensky Vasily , Ray Debashree , Scott Laura J , Stringham Heather M , Vangipurapu Jagadish , Welch Ryan , Yajnik Pranav , Yin Xianyong , Eriksson Johan G , Ala-Korpela Mika , Järvelin Marjo-Riitta , Männikkö Minna , Laivuori Hannele ,   FinnGen Project, Dutcher Susan K , Stitziel Nathan O , Wilson Richard K , Hall Ira M , Sabatti Chiara , Palotie Aarno , Salomaa Veikko , Laakso Markku , Ripatti Samuli , Boehnke Michael , Freimer Nelson B 
Published: November 2018

ABSTRACTAs yet undiscovered rare variants are hypothesized to substantially influence an individual’s risk for common diseases and traits, but sequencing studies aiming to identify such variants have generally been underpowered. In isolated populations that have expanded rapidly after a population bottleneck, deleterious alleles that passed through the bottleneck may be maintained at much higher frequencies than in other populations. In an exome sequencing study of nearly 20,000 cohort participants from northern and eastern Finnish populations that exemplify this phenomenon, most novel trait-associated deleterious variants are seen only in Finland or display frequencies more than 20 times higher than in other European populations. These enriched alleles underlie 34 novel associations with 21 disease-related quantitative traits and demonstrate a geographical clustering equivalent to that of Mendelian disease mutations characteristic of the Finnish population. Sequencing studies in populations without this unique history would require hundreds of thousands to millions of participants for comparable power for these variants.
Desmoplakin is required for epidermal integrity and morphogenesis in theXenopus laevisembryo
Authors: Bharathan Navaneetha Krishnan , Dickinson Amanda J.G. 
Published: November 2018

AbstractDesmoplakin (Dsp) is a unique and critical desmosomal protein, however, it is unclear whether this protein and desmosomes themselves are required for epidermal morphogenesis. Using morpholinos or Crispr/Cas9 mutagenesis we decreased the function of Dsp in frog embryos to better understand its role during epidermal development. Dsp morphant and mutant embryos had developmental defects that mimicked what has been reported in mammals. Such defects included epidermal fragility which correlated with reduction in cortical keratin and junctional e-cadherin in the developing epidermis. Dsp protein sequence and expression are also highly similar with mammals and suggest shared function across vertebrates. Most importantly, we also uncovered a novel function for Dsp in the morphogenesis of the epidermis inX. laevis. Specifically, Dsp is required during the process of radial intercalation where basally located cells move into the outer epidermal layer. Once inserted these newly intercalated cells expand their apical surface and then they differentiate into specific epidermal cell types. Decreased levels of Dsp resulted in the failure of the radially intercalating cells to expand their apical surface, thereby reducing the number of differentiated multiciliated and secretory cells. Dsp is also required in the development of other ectodermally derived structures such as the mouth, eye and fin that utilize intercalating-like cell movements. We have developed a novel system, in the frog, to demonstrate for the first time that desmosomes not only protect against mechanical stress but are also critical for epidermal morphogenesis.Summary StatementCritical desmosomal protein, desmoplakin, is required for proper distribution and levels of cytoskeletal elements and e-cadherin. Thus embryos with decreased desmoplakin have defects in epidermal integrity and morphogenesis.
Prey’s traits mediate a neotropical toad diet
Authors: McElroy Matthew T. , Donoso David A. 
Published: November 2018

B.ABSTRACTDespite the widespread occurrence of myrmecophagy in anurans it is generally unclear whether ant-specialists feed on ants opportunistically or whether they preferentially select for certain species, potentially favoring specific morphological, ecological, or nutritional traits.We flushed 105 stomachs of a lowland neotropical toad,Rhinella alata, and identified each consumed ant to species level. We used linear selectivity to calculate predator preference by comparing the abundances of consumed species to their abundances in the leaf litter community on Barro Colorado Island, Panama. We conducted multiple regression models to test whether linear selectivity or general predator preference related to seven morphological characteristics and two measurements of nutritional content.Rhinella alatapreferentially harvested 24 ant species. Other species were either avoided (n=34) or were eaten opportunistically (n=26). We found thatR. alatapredominantly preys upon large ants that are textured with hair and/or rugosity and preference for prey did not relate to nutrition content.Rhinella alataavoided small ants even if they were hyper abundant in the environment, and preferentially ate chemically-defended and aggressive ants if they were large enough.We propose thatR. alataprefers large ants because they represent a more efficient prey item in terms of predator handling time and because they are easier to see than are smaller ants. Furthermore, we hypothesize thatR. alatapredation attempts are more successful when prey are textured because microstructures on the tongue and prey surface may increase prey adhesion.The ant specialistR. alatais not specializing on any particular ant species but rather maximizing prey quantity over quality by only eating the largest ants, despite their scarcity in the environment.
Distinct dimensions of emotion in the human brain and their representation on the cortical surface
Authors: Koide-Majima Naoko , Nakai Tomoya , Nishimoto Shinji 
Published: November 2018

AbstractWe experience a rich variety of emotions in daily life. While previous emotion studies focused on only a few predefined, restricted emotional states, a recent psychological study found a rich emotional representation in humans using a large set of diverse human-behavioural data. However, no representation of emotional states in the brain using emotion labels has been established on such a scale. To examine that, we used functional MRI to measure blood-oxygen-level-dependent (BOLD) responses when human subjects watched 3-h emotion-inducing movies labelled with 10,800 ratings regarding each of 80 emotion categories. By quantifying canonical correlations between BOLD responses and emotion ratings for the movie scenes, we found 25 significant dimensions of emotion representation in the brain. Then, we constructed a semantic space of the emotion representation and mapped the emotion categories on the cortical surface. We found that the emotion categories were smoothly represented from unimodal to transmodal regions on the cortical surface. This paper presents a cortical representation of a rich variety of emotion categories, which covers most of the emotional states suggested in traditional theories.
Genetic dissection of Nodal and Bmp signalling requirements during primordial germ cell development
Authors: Senft Anna D. , Bikoff Elizabeth K. , Robertson Elizabeth J. , Costello Ita 
Published: November 2018

AbstractThe essential roles played by Nodal and Bmp signalling during early mouse development have been extensively documented. Here we used conditional deletion strategies to investigate functional contributions made by Nodal, Bmp and Smad downstream effectors during primordial germ cell (PGC) development. We demonstrate that Nodal and its target gene Eomes provide early instructions during formation of the PGC lineage. We discovered that Smad2 inactivation in the visceral endoderm results in increased numbers of PGCs due to an expansion of the PGC niche. Smad1 is required for specification, whereas in contrast Smad4 controls the maintenance and migration of PGCs. Importantly we found that beside Blimp1, down-regulated phosphoSmad159 levels also distinguishes PGCs from their somatic neighbours so that emerging PGCs become refractory to Bmp signalling that otherwise promotes mesodermal development in the posterior epiblast. Thus balanced Nodal/Bmp signalling cues regulate germ cell versus somatic cell fate decisions in the early posterior epiblast.
Subtractive Interaction Proteomics Reveal a Network of Signaling Pathways Activated by an Oncogenic Transcription Factor in Acute Myeloid Leukemia
Authors: Guillen Nathalie , Wieske Maria , Otto Andreas , Mian Afsar Ali , Rokicki Michal , Guy Carol , Alvares Caroline , Hole Paul , Held Hannelore , Ottmann Oliver Gerhard , Becher Dörte , Wilson Marieangela , Heesom Kate J. , Ruthardt Martin , Chiriches Claudia 
Published: November 2018

SummaryAcute myeloid leukemias (AML) are characterized by recurrent genomic alterations, often in transcriptional regulators, which form the basis on which current prognostication and therapeutic intervention is overlaid. In AML transformation can often be attributed to single chromosomal aberrations encoding oncogenes, such as t(15;17)-PML/RARα or t(6;9)-DEK/CAN but it is unclear how these aberrant transcription factors drive leukemic signaling and influence cellular responses to targeted therapies. Here we show that by using a novel “subtractive interaction proteomics” approach, the high risk AML-inducing oncogene t(6;9)-DEK/CAN directly activates signaling pathways that are driven by the ABL1, AKT/mTOR, and SRC family kinases. The interplay of these signaling pathways creates a network with nodes that are credible candidates for combinatorial therapeutic interventions. These results reveal specific interdependencies between nuclear oncogenes and cancer signaling pathways thus providing a foundation for the design of therapeutic strategies to better address the complexity of cancer signaling.Graphical Abstract
“We can feel good”: evaluation of an adapted DBT informed skills programme in medium security
Authors: Ashworth Sarah , Brotherton Natalie 
Published: November 2018

PurposeThe purpose of this paper is to provide a routine evaluation of clinical effectiveness of an adapted DBT informed skills programme (“I Can Feel Good”; Ingamells and Morrissey, 2014), run on both male and female intellectual disability wards of a medium security psychiatric hospital.Design/methodology/approachA pre–post evaluation study of routine clinical practice was undertaken utilising staff report scales collected as the primary source of evaluation.FindingsFindings show a positive shift regarding each module for both gender groups. Due to observed baseline differences between gender groups, data were separated and analysed separately. Non-parametric statistical analysis demonstrates statistically significant improvement across three modules for the male sample (managing feelings, coping in crisis and people skills) and two modules for the female sample (managing feelings and people skills).Originality/valueThere appears to be subtle outcome differences regarding this programme for both gender groups across modules. Potential reasons for this are discussed, along with clinical reflections regarding gender differences and adaptations. Reflections upon future revisions including the integration of the new DBT skills (Linehan, 2014) are made in light of these findings.
NPD process formality across global regions
Authors: Kahn Kenneth B. 
Published: November 2018

PurposeThe paper aims to address the issue of generalizability by examining process formality across the global regions of North America, Europe and Asia. A common prescription in the new product development (NPD) discipline is to employ a formal process. Because generalizability of this prescription has not been fully investigated across global regions, the present manuscript addresses the issue of generalizability by examining process formality across the global regions of North America, Europe and Asia.Design/methodology/approachRecently made available to researchers, data of the Product Development and Management Association’s 2012 Comparative Performance Assessment Study (CPAS) were analyzed. The uniqueness of the 2012 CPAS data set is its global composition with sizable samples from North America, Europe and Asia. Chi-square tests and multivariate analysis of variance were applied.FindingsResults support use of a formal process, as companies with a formal NPD process perceived higher performance than companies with no standard process. Process formality appears to differ across regions and be influenced by innovation strategy. European firms tended to not use a formal process when pursuing radical innovation, and these firms perceived higher performance. North American firms tended to not use a formal process when pursing incremental innovation, but these firms perceived lower performance.Practical implicationsHaving some NPD process is generally better than not having any process at all. Process differences across regions appear to exist when pursuing radical innovation or incremental innovation.Originality/valueThis is one of few studies comparing global regions to examine generalizability of a best practice prescription, namely, the extent to which a formal process should be implemented.
Linking religiosity to citizenship behaviour under
materialism attitude
Authors: Pratono Aluisius Hery 
Published: November 2018

Purpose
This study aims to understand the complex relationship between religiosity
and citizenship behaviour by examining the role of materialism attitude and
empathy.

Design/methodology/approach
This study developed a structural equation model with some measures taken
from the previous literature. This study conducted a survey of young people
in Indonesia context and used partial least square to test the proposed
hypothesis.

Findings
The empirical results indicate the mechanism from religiosity to citizenship
behaviour involves empathy. However, under high materialism attitude, an
increasing level of religiosity will have a lower impact on citizenship than
the individual under low materialism attitude.

Originality/value
This study extends to the discussion on the complicated relationship between
religiosity and citizenship behaviour by introducing the moderating effect
of materialism attitude and the mediating effect of empathy.
One person’s trash is another person’s treasure
Authors: Saarijärvi Hannu , Joensuu Johanna , Rintamaki Timo , Yrjölä Mika 
Published: November 2018

Purpose
Consumer-to-consumer (C2C) electronic commerce (e-commerce) is shaping contemporary retailing. Despite the fact that a large amount of C2C e-commerce is conducted in social media-based platforms (e.g. Facebook), it has remained an unexplored area of research, though social media as a commercial platform can result in differing customer value and, thus, has potential for consumer experiences that lie beyond the reach of traditional C2C e-commerce actors. Consequently, the purpose of this paper is to identify and explore distinct consumer profiles of C2C e-commerce in social media.

Design/methodology/approach
Confirmatory factor analysis and cluster analysis are employed to analyze the data from a quantitative survey focusing on C2C e-commerce.

Findings
Four distinct consumer profiles are introduced and discussed: enthusiasts, bargain hunters, salvagers and apathetics. These profiles capture what kind of value consumers perceive in exchanging used goods with other consumers in Facebook.

Research limitations/implications
The data were collected from one country. Cultural differences in how C2C e-commerce and the role of Facebook are perceived might influence the generalizability of the results. The data set was cross-sectional and based on self-reported data.

Practical implications
First, the study indicates that the social media can offer a unique platform for C2C e-commerce that may result in unique and differentiated consumption experiences. Second, firms should carefully analyze how their existing segments match the consumer profiles presented in this study (enthusiasts, bargain hunters, salvagers, apathetics) to assess future value creation potential and challenges. Third, traditional retailers should evaluate the possibility of acting as a platform for C2C commerce or other types of C2C interaction in order to offer their customers benefits that are characteristic for C2C e-commerce.

Originality/value
This study is among the first attempts to profile C2C e-commerce consumers in social media setting. Interestingly, the profiles differ not in terms of traditional consumer demographics, but on the basis of what kind of value they perceive. Altogether, they grant interesting empirical access to explore the potential and implications of social media-based C2C e-commerce.