bluuebunny/crossref_metadata_2025_split huggingface dataset:
Long distance homing in the cane toad (Rhinella marina) in its native range
Authors: Shaykevich Daniel A. , Pašukonis Andrius , O’Connell Lauren A. 
Published: June 2021

AbstractMany animals exhibit complex navigation over different scales and environments. Navigation studies in amphibians have largely focused on species with life histories that require advanced spatial capacities, such as territorial poison frogs and migratory pond-breeding amphibians that show fidelity to mating sites. However, other species have remained relatively understudied, leaving the possibility that well-developed navigational abilities are widespread. Here, we measured short-term space use in non-territorial, non-migratory cane toads (Rhinella marina) in their native range in French Guiana. After establishing home range, we tested their ability to return to home following translocations of 500 and 1000 meters. Toads were able to travel in straight trajectories back to home areas, suggesting map-like navigational abilities similar to those observed in amphibians with more complex spatial behavior. These observations break with the current paradigm of amphibian navigation and suggest that navigational abilities may be widely shared among amphibians.
Increase of both bottom-up and top-down attentional processes in high dream recallers
Authors: Ruby Perrine , Masson Rémy , Chatard Benoit , Hoyer Roxane , Bottemanne Laure , Vallat Raphael , Bidet-Caulet Aurélie 
Published: June 2021

AbstractEvent-related potentials (ERPs) associated with the involuntary orientation of (bottom-up) attention towards an unexpected sound are of larger amplitude in high dream recallers (HR) than in low dream recallers (LR) during passive listening, suggesting different attentional functioning. We measured bottom-up and top-down attentional performance and their cerebral correlates in 18 HR (11 women, age = 22.7 ± 4.1 years, dream recall frequency = 5.3 ± 1.3 days with a dream recall per week) and 19 LR (10 women, age = 22.3, DRF = 0.2 ±0.2) using EEG and the Competitive Attention Task. Between-group differences were found in ERPs but not in behavior. The results confirm that HR present larger ERPs to distracting sounds than LR during active listening, suggesting enhanced bottom-up processing of irrelevant sounds. HR also presented a larger contingent negative variation during target expectancy and a larger P3b response to target sounds than LR, speaking for an enhanced recruitment of top-down attention. Enhancement of both top-down and bottom-up processes in HR leads to an apparently preserved attentional balance since similar performance were observed in the two groups. Therefore, different neurophysiological profiles can result in similar cognitive performance, with some profiles possibly costlier in term of resource/energy consumption.
Designing a Novel Multi-Epitope Vaccine against SARS-CoV-2; Implication for Viral Binds and Fusion Inhibition through Inducing Neutralizing Antibodies
Authors: Moghri Seyed Amir Hossein Mohammadzadeh Ho , Ranjbar Mojtaba , Hassannia Hadi , Khakdan Fatemeh 
Published: June 2021

ABSTRACTRecently the prevalence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has become a pervasive threat to public health so it is an emergency to vaccine development. The SARS-CoV-2 spike (S) glycoprotein plays a vital role in binds and fusion to the angiotensin-converting enzyme 2 (ACE2). The multi-epitope peptide vaccines are capable of inducing the specific humoral or cellular immune responses. In this regard, the RBD and spike cleavage site is the most probable target for vaccine development to inducing binds and fusion inhibitors neutralizing antibodies. In the present study, several immunoinformatics tools are used for analyzing the spike (S) glycoprotein sequence including the prediction of the potential linear B-cell epitopes, B-cell multi-epitope design, secondary and tertiary structures, physicochemical properties, solubility, antigenicity, and allergenicity for the promising vaccine candidate against SARS-CoV-2.
Bacterial factors drive the differential targeting of Guanylate Binding Proteins toFrancisellaandShigella
Authors: Valeva Stanimira V. , Michal Fanny , Degabriel Manon , Rohde John R. , Randow Felix , Ernst Robert K. , Lagrange Brice , Henry Thomas 
Published: June 2021

ABSTRACTGuanylate-Binding Proteins (GBPs) are interferon-inducible GTPases that play a key role in cell autonomous responses against intracellular pathogens. Seven GBPs are present in humans. Despite sharing high sequence similarity, subtle differences among GBPs translate into functional divergences that are still largely not understood. A key step for the antimicrobial activity of GBPs towards cytosolic bacteria is the formation of supramolecular GBP complexes on the bacterial surface. Such complexes are formed when GBP1 binds lipopolysaccharide (LPS) fromShigellaandSalmonellaand further recruits GBP2, 3, and 4.Here, we investigated GBPs recruitment onFrancisella novicida, a professional cytosol-dwelling pathogen with an atypical tetra-acylated LPS. Co-infection experiments demonstrated that GBPs target preferentiallyS. flexnericompared toF. novicida.F. novicidawas coated by GBP1 and GBP2 in human macrophages but escaped targeting by GBP3 and GBP4. GBP1 and GBP2 features that drive recruitment toF. novicidawere investigated revealing that GBP1 GDPase activity is required to initiate GBP recruitment toF. novicidabut facultative to targetS. flexneri. Furthermore, analysis of chimeric GBP2/5 proteins identified a central domain in GBP2 necessary and sufficient to targetF. novicida.Finally, aF. novicidaΔlpxFmutant with a penta-acylated lipid A was targeted by GBP3 suggesting that lipid A tetra-acylation contributes to escape from GBP3. Altogether our results indicate that GBPs have different affinity for different bacteria and that the repertoire of GBPs recruited onto cytosolic bacteria is dictated by GBP-intrinsic features and specific bacterial factors, including the structure of the lipid A.IMPORTANCEFew bacteria have adapted to thrive in the hostile environment of the cell cytosol. As a professional cytosol-dwelling pathogen,S. flexnerisecretes several effectors to block cytosolic immune effectors, including GBPs. This study illustrates a different approach of adapting to the host cytosol: the stealth strategy developed byF. novicida.F. novicidabears an atypical hypoacylated LPS, which does not elicit neither TLR4 nor caspase-11 activation. Here, this atypical LPS was shown to promote escape from GBP3 targeting. Furthermore, the lower affinity of GBPs forF. novicidaallowed to decipher the different domains that govern GBP recruitment to the bacterial surface. This study illustrates the importance of investigating different bacterial models to broaden our understanding of the intricacies of host-pathogen interactions.
A response-locked classification image analysis of the perceptual decision making : contrast detection
Authors: Maruyama Hironori , Ueno Natsuki , Motoyoshi Isamu 
Published: June 2021

AbstractIn many situations, humans make decisions based on serially sampled information through the observation of visual stimuli. To quantify the critical information used by the observer in such dynamic decision making, we here applied a classification image (CI) analysis locked to the observer’s reaction time (RT) in a simple detection task for a luminance target that gradually appeared in dynamic noise. We found that the response-locked CI shows a spatiotemporally biphasic weighting profile that peaked about 300 ms before the response, but this profile substantially varied depending on RT; positive weights dominated at short RTs and negative weights at long RTs. We show that these diverse results are explained by a simple perceptual decision mechanism that accumulates the output of the perceptual process as modelled by a spatiotemporal contrast detector. We discuss possible applications and the limitations of the response-locked CI analysis.
Modelling hCDKL5 heterologous expression in bacteria
Authors: Fondi Marco , Gonzi Stefano , Dziurzynski Mikolaj , Turano Paola , Ghini Veronica , Calvanese Marzia , Colarusso Andrea , Lauro Concetta , Parrilli Ermenegilda , Tutino Maria Luisa 
Published: June 2021

AbstracthCDKL5 refers to the human cyclin-dependent kinase that is primarily expressed in the brain where it exerts its function in several neuron districts. Mutations in its coding sequence are often causative of hCDKL5 deficiency disorder. The large-scale recombinant production of hCDKL5 is desirable to boost the translation of current therapeutic approaches into the clinic. However, this is hampered by the following features: i) almost two-thirds of hCDKL5 sequence are predicted to be intrinsically disordered, making this region more susceptible to proteolytic attack; ii) the cytoplasmic accumulation of the enzyme in eukaryotic host cells is associated to toxicity. The bacterium Pseudoalteromonas haloplanktis TAC125 (PhTAC125) is the only prokaryotic host in which the full-length production of hCDKL5 has been demonstrated. To date, a system-level understanding of the metabolic burden imposed by hCDKL5 production is missing, although it would be crucial for the upscaling of the production process. Here, we have combined experimental data on protein production and nutrients assimilation with metabolic modelling to infer the global consequences of hCDKL5 production in PhTAC125 and to identify potential overproduction targets. Our analyses showed a remarkable accuracy of the model in simulating the recombinant strain phenotype and also identified priority targets for optimized protein production.
Development of a semi-automated method for tumor budding assessment in colorectal cancer and comparison with manual methods
Authors: Fisher Natalie C , Loughrey Maurice B , Coleman Helen G , Gelbard Melvin D , Bankhead Peter , Dunne Philip D 
Published: June 2021

AbstractTumor budding is an established prognostic feature in multiple cancers but routine assessment has not yet been incorporated into clinical pathology practice. Recent efforts to standardize and automate assessment have shifted away from haematoxylin and eosin (H&E)-stained images towards cytokeratin (CK) immunohistochemistry. In this study, we compare established manual H&E and cytokeratin budding assessment methods with a new, semi-automated approach built within the QuPath open-source software. We applied our method to tissue cores from the advancing tumor edge in a cohort of stage II/III colon cancers (n=186).The total number of buds detected by each method, over the 186 TMA cores, were as follows; manual H&E (n=503), manual CK (n=2290) and semi-automated (n=5138). More than four times the number of buds were detected using CK compared to H&E. A total of 1734 individual buds were identified both using manual assessment and semi-automated detection on CK images, representing 75.7% of the total buds identified manually (n=2290) and 33.7% of the total buds detected using our proposed semi-automated method (n=5138). Higher bud scores by the semi-automated method were due to any discrete area of CK immunopositivity within an accepted area range being identified as a bud, regardless of shape or crispness of definition, and to inclusion of tumor cell clusters within glandular lumina (“luminal pseudobuds”). Although absolute numbers differed, semi-automated and manual bud counts were strongly correlated across cores (ρ=0.81, p<0.0001). Despite the random, rather than “hotspot”, nature of tumor core sampling, all methods of budding assessment demonstrated poorer survival associated with higher budding scores.In conclusion, we present a new QuPath-based approach to tumor budding assessment, which compares favorably to current established methods and offers a freely-available, rapid and transparent tool that is also applicable to whole slide images.
Interspecific interactions regulate plant reproductive allometry in cereal-legume intercropping systems
Authors: Gaudio Noémie , Violle Cyrille , Gendre Xavier , Fort Florian , Mahmoud Rémi , Pelzer Elise , Médiène Safia , Hauggaard-Nielsen Henrik , Bedoussac Laurent , Bonnet Catherine , Corre-Hellou Guénaëlle , Couëdel Antoine , Hinsinger Philippe , Jensen Erik Steen , Journet Etienne-Pascal , Justes Eric , Kammoun Bochra , Litrico Isabelle , Moutier Nathalie , Naudin Christophe , Casadebaig Pierre 
Published: June 2021

AbstractCalls for ecological principles in agriculture have gained momentum. Intercropping systems have long been designed by growing two, or more, annual crop species in the same field, aiming for a better resource use efficiency. However, assembly rules for their design are lacking. Notably, it is still unknown whether species performances are maximized during both the vegetative and reproductive phases given the sensitivity of reproductive allocation rules to resource limitation. Interestingly, ecological theory provides expectations regarding putative invariance of plant reproductive allometry (PRA) under non-limiting conditions for plant growth. Here we examined whether and how PRA changes in response to plant-plant interactions in intercropping systems, which can inform both ecological theory and the understanding of the functioning of intercropping systems.We analyzed a dataset of 28 field cereal-legume intercropping trials from various climatic and management conditions across Western Europe. PRA was quantified in both mixing and single-species situations.PRA was positively impacted in specific management conditions, leading to a greater increase in yield for a given increase in plant size. Variations in PRA were more beneficial for legumes grown in unfertilized mixture, which explains their use as a key component in actual intercrop systems. The response for cereals was similar but less pronounced in magnitude, and was greater under limiting resource conditions. Focusing on intercropping conditions, hierarchical competition (indicated by biomass difference between intercropped species) appears as a strong driver of the reproductive output of a given species.Synthesis and applications. Plant reproductive allometry behaves in crop species in the same way as it does in wild species. However, contrary to theoretical expectations about an overall invariance of PRA, we highlighted taxon-specific and context-dependent effects of plant-plant interactions on PRA. This systematic deviation to PRA expectations could be leveraged to cultivate each species up to its reproductive optimum while accounting for the performance of the other, whether farmer’s objective is to favor one species or to reach an equilibrium in seed production. Sowing density and cultivar choice could regulate the biomass of each component, with specific targets derived from allometric relationships, aiming for an optimal reproductive allocation in mixtures.
Accounting in and for hybrids. Observations of the power of disentanglements
Authors: Weichselberger Gustaf Kastberg , Lagström Cristian 
Published: June 2021

PurposeThe authors argue that the mainstream scholarly discourse on hybridity and accounting is thus far primarily interested in the use and effects of accounting “in” hybrid organizations. Consequently, the literature has to a lesser extent explored how accounting mediates hybrid settings (while also being mediated), and the role of disentanglements in such processes. In hybrid settings, objects are difficult to define, and measures and tools difficult to agree upon. However, the literature on hybrid accounting is inconclusive and indicates that accounting can potentially both stabilize and de-stabilize relations in a hybrid setting. The authors address the research question of how accounting emerges and manifests itself in a process of entangling and disentangling in a heterogeneous emerging hybrid setting.Design/methodology/approachThe paper is based on a longitudinal qualitative case study of the implementation of social investments, a public sector calculative framework based on the logic of measuring long term and social and economic impact of prevention. Methodologically, the study was guided by actor-network theory. In total, 18 observations and 48 interviews were conducted.FindingsThe observation the authors make in their case study is that much effort was spent on both keeping things apart and tying elements together. What the authors add to the literature is an illumination of how the interplay between entanglements and disentanglements facilitated the design idea of social investments to be enacted as multiple semi-integrated and purified hybridizations. The authors describe different translation points, each representing a specific hybridization where elements were added, recombined and disentangled. Still, the translation points were not completely compartmentalized, but rather semi-integrated where associations were facilitated through active mediation, likeness and productiveness for each other.Research limitations/implicationsOne limitation is the single case approach. A second limitation arises from the ANT approach to hybridity.Practical implicationsA practical implication of this paper is that in hybrid settings, the semi-integrated character may be interpreted as a strength because it allows the mobilization of heterogenous actors. However, this may also come at the cost of governability and raises further questions of managerial practices in hybrid settings.Social implicationsThe paper suggests the potentially productive role of disentanglements in allowing multiple hybridizations to evolve in hybrid accounting settings.Originality/valueThe paper suggests the potentially productive role of disentanglements in allowing multiple stabilized hybridizations to evolve in hybrid accounting settings.
Safety analysis of the optionally-piloted airplane landing
Authors: Pieniazek Jacek , Ciecinski Piotr 
Published: June 2021

Purpose
This study aims to optionally-piloted aircraft is useful for in-flight tests of new automatic controller’s concepts. The safety of this kind of experiment is an issue addressed in this paper. The prediction of possible safety-influencing factors makes it possible to assess the pilot’s ability to effectively prevent safety risks.

Design/methodology/approach
The analysis in this research paper focusses on two cases of monitoring; similar control standards for both pilot in command and the monitoring pilot or technical systems in one of these tasks and dissimilar control standard when monitoring pilot is not familiar with a control manner of the pilot in command or of the automatic control system. The increased workload is expected in the last case as the result of additional activities determined theoretically in the presented analysis. Details of the possible threats are obtained by simulation tests with various factors influencing the safety of landing. In addition to determining threats, the analysis includes the possibility of in time threat detection and preserving action.

Findings
The results show that the safety pilot has a different task than the pilot in command and needs to be familiar with the general principles of automatic controller operations and the particular algorithm being tested. Although commonly used landing procedure is relatively error-tolerant, new landing procedures for use in some specific conditions need more precise control and additional safety pilot preparation. Additional information presented to both the pilot in command and the safety pilot may increase mode and state awareness and reduce reaction time in an emergency condition.

Practical implications
In-flight tests of non-standard control algorithms there is a need to include additional preparation of the equipment and safety pilot. The research in this paper illustrates how to determine threats and safety-critical moments during the experimental flight can be observed. The danger is mitigated by the safety pilot, if familiar with both proper and improper operations of the controller and how the pilot in command should detect and predict danger caused by the tested control system.

Originality/value
The presented method of analysis combines the human factor with various technical aspects. The results obtained illustrate the real tasks of the person supervising the operation of the automatic control system and the role of a human as a safety pilot.
Numerical simulation method of lines together with a pseudospectral method for solving space-time partial differential equations with space left- and right-sided fractional derivative
Authors: Ali Mushtaq , Almoaeet Mohammed , Albuohimad Basim Karim 
Published: June 2021

PurposeThis study aims to use new formula derived based on the shifted Jacobi functions have been defined and some theorems of the left- and right-sided fractional derivative for them have been presented.Design/methodology/approachIn this article, the authors apply the method of lines (MOL) together with the pseudospectral method for solving space-time partial differential equations with space left- and right-sided fractional derivative (SFPDEs). Then, using the collocation nodes to reduce the SFPDEs to the system of ordinary differential equations, which can be solved by the ode45 MATLAB toolbox.FindingsApplying the MOL method together with the pseudospectral discretization method converts the space-dependent on fractional partial differential equations to the system of ordinary differential equations.Originality/valueThis paper contributes to gain choosing the shifted Jacobi functions basis with special parametersa,band give the authors this opportunity to obtain the left- and right-sided fractional differentiation matrices for this basis exactly. The results of the examples are presented in this article. The authors found that the method is efficient and provides accurate results, and the authors found significant implications for success in the science, technology, engineering and mathematics domain.
Understanding the antecedents and outcomes of brand community-swinging in a poly-social-media context: a perspective of channel complementarity theory
Authors: Liao Junyun , Chen Jiawen , Dong Xuebing 
Published: June 2021

PurposeThis study aims to examine the increasingly widespread phenomenon of brand community-swinging, which refers to a user's routine use of multiple brand communities of a brand across different social media. Drawing from channel complementarity theory, this study examines whether the complementarity of gratifications in four values (i.e. information value, entertainment value, social interaction value and self-presentation value) influences brand community-swinging and, in turn, cultivates brand loyalty.Design/methodology/approachA questionnaire was developed to collect relevant data from users of a well-known smartphone brand. The survey yielded a total of 351 useable responses, and a structural equation model approach was used to test the hypotheses.FindingsThe results indicate that three types of gratification complementarity (information value, social interaction value and self-presentation value) have a significantly positive impact on consumers' brand community-swinging, which further fosters brand loyalty.Originality/valuePrevious research predominantly focused on the motivations and outcomes of consumers' participation within a single-brand community, but little is known about the antecedents and outcomes of brand community-swinging in a poly-social-media context. This study contributes to the brand community literature by addressing this research gap.