bluuebunny/crossref_metadata_2025_split huggingface dataset:
Tailored haemodynamic response function increases detection power of fMRI in awake dogs (Canis familiaris)
Authors: Boch Magdalena , Karl Sabrina , Sladky Ronald , Huber Ludwig , Lamm Claus , Wagner Isabella C. 
Published: March 2020

AbstractFunctional magnetic resonance imaging (fMRI) of awake and unrestrained dogs (Canis familiaris) has been established as a novel opportunity for comparative neuroimaging, promising important insights into the evolutionary roots of human brain function and cognition. However, data processing and analysis pipelines are often derivatives of methodological standards developed for human neuroimaging, which may be problematic due to profound neurophysiological and anatomical differences between humans and dogs. Here, we explore whether dog fMRI studies would benefit from a tailored dog haemodynamic response function (HRF). In two independent experiments, dogs were presented with different visual stimuli. BOLD signal changes in the visual cortex during these experiments were used for (a) the identification and estimation of a tailored dog HRF, and (b) the independent validation of the resulting dog HRF estimate. Time course analyses revealed that the BOLD signal in the primary visual cortex peaks significantly earlier in dogs compared to humans, while being comparable in shape. Deriving a tailored dog HRF significantly improved the model fit in both experiments, compared to the canonical HRF used in human fMRI. Using the dog HRF yielded significantly increased activation during visual stimulation, extending from the occipital lobe, to the caudal parietal cortex, the bilateral temporal cortex, and into bilateral hippocampal and thalamic regions. In sum, our findings provide robust evidence for an earlier onset of the dog HRF in a visual stimulation paradigm, and suggest that using such an HRF will be important to increase fMRI detection power in canine neuroimaging. By providing the parameters of the tailored dog HRF and related code, we encourage and enable other researchers to validate whether our findings generalize to other sensory modalities and experimental paradigms.HighlightsDog fMRI typically uses human HRF, but underlying neurophysiology might differV1 BOLD signal peaked earlier in dogs than predicted by the human HRFTailored dog HRF improved model fit when tested with independent dataWhole-brain comparisons confirmed increased detection power for tailored dog HRFDog fMRI will benefit from increased detection power of tailored HRF
Standardization and Harmonization of Distributed Multi-National Proteotype Analysis supporting Precision Medicine Studies
Authors: Xuan Yue , Bateman Nicholas W. , Gallien Sebastien , Goetze Sandra , Zhou Yue , Navarro Pedro , Hu Mo , Parikh Niyati , Hood Brian L. , Conrads Kelly A. , Loosse Christina , Kitata Reta Birhanu , Piersma Sander R. , Chiasserini Davide , Zhu Hongwen , Hou Guixue , Tahir Muhammad , Macklin Andrew , Khoo Amanda , Sun Xiuxuan , Crossett Ben , Sickmann Albert , Chen Yu-Ju , Jimenez Connie R. , Zhou Hu , Liu Siqi , Larsen Martin R. , Kislinger Thomas , Chen Zhinan , Parker Benjamin L. , Cordwell Stuart J. , Wollscheid Bernd , Conrads Thomas P. 
Published: March 2020

AbstractCancer has no borders: Generation and analysis of molecular data across multiple centers worldwide is necessary to gain statistically significant clinical insights for the benefit of patients. Here we conceived and standardized a proteotype data generation and analysis workflow enabling distributed data generation and evaluated the quantitative data generated across laboratories of the international Cancer Moonshot consortium. Using harmonized mass spectrometry (MS) instrument platforms and standardized data acquisition procedures, we demonstrated robust, sensitive, and reproducible data generation across eleven sites in nine countries on seven consecutive days in a 24/7 operation mode. The data presented from the high-resolution MS1-based quantitative data-independent acquisition (HRMS1-DIA) workflow shows that coordinated proteotype data acquisition is feasible from clinical specimens using such standardized strategies. This work paves the way for the distributed multi-omic digitization of large clinical specimen cohorts across multiple sites as a prerequisite for turning molecular precision medicine into reality.
Plant-derived CO2mediates long-distance host location and quality assessment by a root herbivore
Authors: Arce Carla C. M. , Theepan Vanitha , Schimmel Bernardus C. J. , Jaffuel Geoffrey , Erb Matthias , Machado Ricardo A. R. 
Published: March 2020

SummaryInsect herbivores can use volatile and visual cues to locate and select suitable host plants from a distance. The importance of CO2, arguable the most conserved volatile marker of metabolic activity, is not well understood in this context, even though many herbivores are known to respond to minute differences in CO2concentrations. To address this gap of knowledge, we manipulated CO2perception of the larvae of the western corn rootworm (Diabrotica virgifera virgifera; WCR) through RNA interference and studied how CO2perception impacts their interaction with their host plant, maize (Zea mays). We show that the expression of a putative Group 2 carbon dioxide receptor,DvvGr2, is specifically required for dose-dependent larval responses to CO2in the ppm range. SilencingDvvGr2has no effect on the ability of WCR larvae to locate host plants at short distance (<9 cm), but impairs host location at greater distances. Using soil arenas and olfactometer experiments in combination withDvvGr2silencing and CO2scrubbing, we demonstrate that WCR larvae use CO2as a long-range host plant finding cue, but employ other volatiles for short-range host location. We furthermore show that the larvae use CO2as a fitness-relevant long-distance indicator of plant nutritional status: Maize plants that are well-fertilized emit more CO2from their roots and are better hosts for WCR than plants that are nutrient-deficient, and the capacity of WCR larvae to distinguish between these plants depends exclusively on their capacity to perceive CO2throughDvvGr2. This study unravels how CO2can mediate plant-herbivore interactions by serving as a distance-dependent host location and quality assessment cue.
Impaired adult hippocampal neurogenesis in Alzheimer’s disease is mediated by microRNA-132 deficiency and can be restored by microRNA-132 replacement
Authors: Salta Evgenia , Walgrave Hannah , Balusu Sriram , Vanden Eynden Elke , Snoeck Sarah , Craessaerts Katleen , Thrupp Nicky , Wolfs Leen , Horré Katrien , Fourne Yannick , Ronisz Alicja , Silajdžić Edina , Callaerts-Vegh Zsuzsanna , D’Hooge Rudi , Rudolf Thal Dietmar , Zetterberg Henrik , Thuret Sandrine , Fiers Mark , Sala Frigerio Carlo , De Strooper Bart 
Published: March 2020

SummaryAdult hippocampal neurogenesis (AHN) plays a crucial role in memory processes and is impeded in the brains of Alzheimer’s disease (AD) patients. However, the molecular mechanisms impacting AHN in AD brain are unknown. Here we identify miR-132, one of the most consistently downregulated microRNAs in AD, as a novel mediator of the AHN deficits in AD. The effects of miR-132 are cell-autonomous and its overexpression is proneurogenic in the adult neurogenic nichein vivoand in human neural stem cellsin vitro. miR-132 knockdown in wild-type mice mimics neurogenic deficits in AD mouse brain. Restoring miR-132 levels in mouse models of AD significantly restores AHN and relevant memory deficits. Our findings provide mechanistic insight into the hitherto elusive functional significance of AHN in AD and designate miR-132 replacement as a novel therapeutic strategy to rejuvenate the AD brain and thereby alleviate aspects of memory decline.
A regulatory interface on RIPK2 is required for XIAP binding and NOD signaling activity
Authors: Heim Valentin J. , Dagley Laura F. , Stafford Che A. , Hansen Fynn M. , Clayer Elise , Bankovacki Aleksandra , Webb Andrew I. , Lucet Isabelle S. , Silke John , Nachbur Ueli 
Published: March 2020

AbstractSignaling via the intracellular pathogen receptors Nucleotide-binding oligomerization domain-containing proteins NOD1 and NOD2 requires Receptor Interacting Kinase 2 (RIPK2), an adaptor kinase that can be targeted for the treatment of various inflammatory diseases. However, the molecular mechanisms of how RIPK2 contributes to NOD signaling are not completely understood. We generated FLAG-tagged RIPK2 knock-in mice using CRISPR/Cas9 technology to study NOD signaling mechanisms at the endogenous level. Using cells from these mice we were able to generate a detailed map of post-translational modifications on RIPK2 during NOD signaling and we identified a new regulatory interface on RIPK2, which dictates the crucial interaction with the E3 ligase XIAP.
RhoBAST - a rhodamine-binding aptamer for super-resolution RNA imaging
Authors: Sunbul Murat , Lackner Jens , Martin Annabell , Englert Daniel , Hacene Benjamin , Nienhaus Karin , Nienhaus G. Ulrich , Jäschke Andres 
Published: March 2020

AbstractRhoBAST is a novel fluorescence light-up RNA aptamer (FLAP) that transiently binds a fluorogenic rhodamine dye. Fast dye association and dissociation result in intermittent fluorescence emission, facilitating single-molecule localization microscopy (SMLM) with an image resolution not limited by photobleaching. We demonstrate RhoBAST's excellent properties as a RNA marker by resolving subcellular and subnuclear structures of RNA in live and fixed cells by SMLM and structured illumination microscopy (SIM).
A Generalized Robust Allele-based Genetic Association Test
Authors: Zhang Lin , Sun Lei 
Published: March 2020

AbstractThe allele-based association test, comparing allele frequency difference between case and control groups, is locally most powerful. However, application of the classical allelic test is limited in practice, because the method is sensitive to the Hardy–Weinberg equilibrium (HWE) assumption, not applicable to continuous traits, and not easy to account for covariate effect or sample correlation. To develop a generalized robust allelic test, we propose a new allele-based regression model with individual allele as the response variable. We show that the score test statistic derived from this robust and unifying regression framework contains a correction factor that explicitly adjusts for potential departure from HWE, and encompasses the classical allelic test as a special case. When the trait of interest is continuous, the corresponding allelic test evaluates a weighted difference between individual-level allele frequency estimate and sample estimate where the weight is proportional to an individual’s trait value, and the test remains valid underY- dependent sampling. Finally, the proposed allele-based method can analyze multiple (continuous or binary) phenotypes simultaneously and multi-allelic genetic markers, while accounting for covariate effect, sample correlation and population heterogeneity. To support our analytical findings, we provide empirical evidence from both simulation and application studies.
ZIP9 is a Druggable Determinant of Sex Differences in Melanoma
Authors: Aguirre-Portolés Cristina , Payne Riley , Trautz Aspen , Foskett J. Kevin , Natale Christopher A. , Seykora John T. , Ridky Todd W. 
Published: March 2020

AbstractMelanoma and most other cancers occur more frequently, and have worse prognosis, in males compared with females. Though sex steroids are thought to be involved, classical androgen and estrogen receptors are not detectable in most melanomas. Here we show that testosterone promotes melanoma proliferation by activating ZIP9 (SLC39A9), a zinc transporter that is not intentionally targeted by available therapeutics, but is widely expressed in human melanoma. This testosterone activity requires zinc influx, MAPK activation and YAP1 nuclear translocation. We demonstrate that FDA approved inhibitors of the classical androgen receptor also inhibit ZIP9, and thereby antagonize the pro-tumorigenic effects of testosterone in melanoma. In male mice, androgen receptor inhibitors suppressed growth of ZIP9-expressing melanomas, but had no effect on isogenic melanomas lacking ZIP9, nor on melanomas in females. These data suggest that ZIP9 might be effectively targeted in melanoma and other cancers by repurposing androgen receptor inhibitors that are currently approved only for prostate cancer.SignificanceMelanoma outcomes are worse in males than in females. Some of this difference is driven by testosterone signaling through ZIP9, a nonclassical testosterone receptor. Drugs that target AR can be repurposed to block ZIP9, and inhibit melanoma in males.
Deconstructing the association between abiotic factors and species assemblages in the global ocean microbiome
Authors: Shan Xiaoyu , Cordero Otto X. 
Published: March 2020

AbstractRecent work on microbial communities from various environments has shown that coexisting microorganisms with similar metabolic functions can be combined into high level “functional groups”, which explain a larger proportion of variance in abiotic parameters than any individual taxon. However, the general rules by which taxa should be aggregated into functional groups remain elusive. Here, we show that two conditions are required for species-assemblages to explain a higher percentage of variance in abiotic factors than single taxa. 1) consistent taxa-environment correlations, and 2) weak or negative correlations (i.e. complementarity) between taxa. Applying this recipe to the ocean microbiome, we found that the best grouping of taxa is one that partitions it into only two groups, a core and a flexible assemblage. The core assemblage is enriched inCyanobacteriaand oligotrophic heterotrophs, and was strongly correlated to the first principal component of the taxa-sample matrix. The flexible assemblage instead was enriched in metabolically versatile copiotrophs, abundant at higher depths. This simple core / flexible bipartition explained the most variance in abiotic parameters and outperformed annotation-based functional groups as well as individual taxa. It therefore represents the simplest and best grouping of taxa that can be extracted from current ocean microbiome surveys.
Glycolysis Fuels Phosphoinositide 3-Kinase Signaling to Bolster T Cell Immunity
Authors: Xu Ke , Yin Na , Peng Min , Stamatiades Efstathios G. , Shyu Amy , Li Peng , Zhang Xian , Do Mytrang H. , Wang Zhaoquan , Capistrano Kristelle J. , Chou Chun , Levine Andrew G. , Rudensky Alexander Y. , Li Ming O. 
Published: March 2020

AbstractInfection triggers clonal expansion and effector differentiation of microbial antigen-specific T cells in association with metabolic reprograming. Here, we show that the glycolytic enzyme lactate dehydrogenase A (LDHA) is induced in CD8+T effector cells via phosphoinositide 3-kinase (PI3K)-dependent mechanisms. In turn, ablation of LDHA inhibits PI3K-dependent phosphorylation of Akt and its transcription factor target Foxo1, causing defective antimicrobial immunity. LDHA deficiency cripples cellular redox control and diminishes glycolytic adenosine triphosphate (ATP) production in effector T cells, resulting in attenuated PI3K signaling. Thus, nutrient metabolism and growth factor signaling are highly integrated processes with glycolytic ATP serving as a rheostat to gauge PI3K/Akt/Foxo1 signaling in T cell immunity control. Such a bioenergetics mechanism of signaling regulation implies a root cause for the century-old phenomenon of Warburg effect, and could guide development of novel therapeutics for infectious diseases and cancer.One Sentence SummaryA PI3K and LDHA circuit enables T cell immunity
Recovery, quality of life and issues in supported housing among residents with co-occurring problems: a cross-sectional study
Authors: Nesse Linda , Gonzalez Marianne Thorsen , Aamodt Geir , Raanaas Ruth Kjærsti 
Published: March 2020

PurposeRecovery for residents who experience co-occurring problems and live in supported housing takes place in everyday contexts. This study aims to explore residents’ self-reported recovery and quality of life and examine the relationships between these factors and issues in supported housing.Design/methodology/approachA cross-sectional study was conducted at 21 supported housing sites in six cities across Norway. A total of 104 residents (76 men and 28 women) responded to measures of recovery (Recovery Assessment Scale – Revised), life satisfaction (Manchester Short Assessment of Quality of Life), affect (single items), staff support (Brief INSPIRE) and sense of home (single items).FindingsLinear regression analyses indicated associations between recovery and staff support (B= 0.01, 95% CI = 0.01-0.02,ß= 0.39), housing satisfaction (B= 0.15, 95% CI = 0.07-0.22,ß= 0.38), sense of home (B= 0.23, 95% CI = 0.14-0.32,ß= 0.49) and satisfaction with personal economy (B= 0.11, 95% CI = 0.05-0.17,ß= 0.33). Similarly, associations were found between life satisfaction and staff support (B= 0.03, 95% CI = 0.02-0.04,ß= 0.46), housing satisfaction (B= 0.63, 95% CI = 0.46-0.80,ß= 0.60), sense of home (B= 0.65, 95% CI = 0.42-0.87,ß= 0.51) and satisfaction with personal economy (B= 0.34, 95% CI = 0.19-0.50,ß= 0.39).Originality/valueThe findings imply that core issues in supported housing, namely, staff support, housing satisfaction, sense of home and satisfaction with personal economy, are associated with recovery and quality of life.
Using the cost of construction work to trigger legislative duties for WHS: the Australian experience
Authors: Shooshtarian Salman , Lingard Helen , Wong Peter S.P. 
Published: March 2020

PurposeIn an attempt to create national harmonisation of legislation, a set of model Work Health and Safety (WHS) Regulations were developed in Australia. These regulations require principal contractors to undertake specific WHS planning and coordination activities if the construction works to be completed cost AU $250,000 or more. However, there are some doubts about the usefulness of this monetary threshold. This study aimed to investigate how effective this threshold can be in Australia.Design/methodology/approachTo evaluate the performance and operation of this threshold in the Australian construction industry, this study modelled the costs of construction for four construction project scenarios – small classroom, two-storey home renovation with adjacent pool, small commercial warehouse and single-storey house (volume home builder) – under various conditions based on historical data (2011–2017) and in eight Australian jurisdictions.FindingsAmong the six study factors (i.e. the types for construction, geographical location, design specification, delivery method, contracting approach and inflation), the research found considerable variation in the operation and performance of the monetary threshold.Originality/valueThe research highlights some potential challenges associated with the use of a monetary threshold in the regulation of WHS planning in construction projects. Thus, the results are expected to contribute to addressing these challenges, leading to the development of an appropriate balance to achieve efficient and effective WHS regulation in Australia.
Effect of utilitarian and hedonic values on consumer willingness to buy and to pay for organic olive oil in Tunisia
Authors: Ghali Zohra Zinoubi 
Published: March 2020

PurposeThis paper aims to study the influence of organic food perceived values (utilitarian vs hedonic) on consumer willingness to buy and willingness to pay in a developing country.Design/methodology/approachThis paper utilized a survey of 467 Tunisian consumers of organic olive oil. Data were analyzed using structural equation modeling (SEM) to test the reliability and validities of constructs, as wells as model fit and the structural model.FindingsThe findings indicate that both utilitarian and hedonic values have significant influence on consumer willingness to buy and to pay for organic olive oil. The hedonic value has a stronger influence on willingness to buy while the utilitarian value has a stronger influence on willingness to pay.Research limitations/implicationsThis study contributes to knowledge regarding the relationships between organic food perceived value and consumer willingness to buy and to pay. Findings provide clear ways for practitioners to communicate the perceived values of their organic foods in order to increase their consumption.Originality/valueThis paper is one of the rare studies that focuses on willingness to buy and to pay for organic food in a developing country. In addition, it is a first attempt to test the consumer perceived values of organic olive oil in the context of one of the biggest producer countries of this type of food.
Other’s place or othering space
Authors: Jayawardena Dhammika 
Published: March 2020

PurposeThis paper aims to understand the dialectical relationship between place-making and identity formation of factory women in a free trade zone (FTZ) in the Global South.Design/methodology/approachInspired by Judith Butler’s notions of performative acts and performativity, the paper uses poststructuralist discourse analysis to analyze data – oral and written texts – generated through a fieldwork study conducted in an FTZ in Sri Lanka.FindingsPerformative acts and the performativity of the occupants in the FTZ demarcate the boundary of the zone and articulate the identities of its occupants. Furthermore, the study shows that, in this process, such performativity and performative acts function as a form of “glue” to amalgamate the places of the zone space askalape, a complex socio-geographical landscape in flux.Research limitations/implicationsThis study provides a new insight into the relationships between discursive-performative acts, place-making and identity formation of (factory) women in the neoliberalized (zone) space(s) of the Global South.Originality/valueBy articulating the FTZ as a (neoliberalized) space in a perpetual present, the study provides new insight into the relationships between performative acts, place-making and identity formation (of factory women) in the zone space.
Multichannel versus omnichannel: a price-segmented comparison from the fashion industry
Authors: Silva Susana C. , Duarte Paulo , Sundetova Anel 
Published: March 2020

PurposeThe purpose of this study is to explore and compare how fashion and apparel brands are using the multiple available channels to increase the number of touchpoints with clients by evaluating the use of multichannel and omnichannel strategies.Design/methodology/approachTo determine the differences between fashion and apparel brands in terms of marketing channel used, a multiple case study approach was selected based on a sample of nine well-known and successful fashion brands from three different price segments. The research was carried out by analysing the online and mobile presence of the brands, company reports, news, magazines, and other types of articles.FindingsThe results illustrate that fashion brands tend to act in the same way and have only slight differences concerning the number of channels and features available to clients despite the price segment they belong. The findings indicate that the brands under study have good channel integration, order tracking, on-line communication, and social media. Overall, the findings allow concluding that irrespective of the price segment, all fashion brands act almost in the same way and present only slight differences between the number of channels used and features available.Originality/valueThe current study provides an innovative price-segmented comparison on channel use and integration by fashion brands' and additional valuable information about channel strategy that can be used to guide new comparative research and helps new brands defining points-of-parity and points-of-difference with regard to market standards.