bluuebunny/crossref_metadata_2025_split huggingface dataset:
Should You Buy a Three-Dimensional Printer? A Study of an Orbital Fracture
Authors: Valding Bastien , Zrounba Hugues , Martinerie Sébastien , May Laurence , Broome Martin 
Published: September 2018

Abstract
The use of three-dimensional (3D) printing has been growing significantly in medicine for the past 10 years, especially in maxillofacial surgery. A lot a different softwares and printers are available on the market, and it can be difficult to choose which one fits best one's needs. In the authors’ institution, the authors regularly print orbits to prepare the reconstruction. The authors then compared the 3D printing of an orbital fracture between a professional and nonprofessional software and between a bottom of the range and a more elaborated printer. The results show that there is a wide variation between the quality of the printing, as well as the time used for the preparation. Costs between free or professional software must also be considered. In conclusion, an analysis of needs and what is available on the market must be studied before investing in 3D printing.
Use of Recombinant Human Bone Morphogenetic Protein-2 Associated With Lyophilized Bovine Bone in Reconstruction of Atrophic Maxilla
Authors: Zanettini Leonardo Matos Santolim , Vieira Fabrício , Fritscher Guilherme Genehr , Pagnoncelli Rogério Miranda , Heitz Cláiton 
Published: September 2018

Abstract
Cases of severely atrophic edentulous maxilla require reconstruction techniques employing bone grafts to promote adequate bone dimension for the successful placement of dental implants for prosthetic rehabilitation that reestablishes the patient's function and aesthetics. This study aims to present a severely atrophic edentulous maxilla reconstruction with the off-label use of recombinant human bone morphogenetic protein type 2 (rhBMP-2) associated with lyophilized particulate bovine bone xenograft for the prosthetic rehabilitation with osseointegrable dental implants. The paper describes a case of severely atrophic edentulous maxilla in a 42-year-old woman referred to the dental school with complaint of failure in adaptating to the dentures. The patient reported 27 years of maxilla edentulism and consecutive treatment failures, so the proposed therapy was the reconstruction of the maxilla with an association of rhBMP-2 and lyophilized bovine bone xenograft for increasing bone volume and further prosthetic rehabilitation with osseointegrated dental implants. The present report illustrates a case of atrophic edentulous maxilla in which the off-label use of rhBMP-2 was successful and the patient's prosthetic rehabilitation could be concluded. The 8 dental implants received prosthetic functional load during 1 year of follow-up with no complications. Based on the case presented, the association between rhBMP-2 and a bovine bone xenograft could be considered a viable option for the reconstruction of atrophic edentulous maxilla. After a year of functional prosthetic load follow-up, the patient is asymptomatic and satisfactorily adaptated to the prosthesis, which restored her functional and aesthetic demands.
Short Communication Principal Component Analysis Applied to Alzheimer’s Disease: USA by State
Authors: Parady Bodo 
Published: September 2018

AbstractPrincipal Component Analysis (PCA) of Alzheimer’s disease (AD) and twelve epidemiological and socio-economic components of the USA states inform etiology by extracting large scale patterns. The twelve components demonstrate simple pairwise Pearson correlations to AD, and then are analyzed by PCA for loadings associated with AD. Repetitive factor analysis and the culling of questionable data reduced the factors (all per capita) associated with AD to two, one factor with the components dentists and wine consumption and another factor with the components beer consumption and dentists. Dentists and wine are likely associated with reduced AD incidence because of the known inverse association with elevated education. Dental care is known to be inversely associated with AD incidence. The contribution of beer consumption to AD incidence is likely because of the negative effect on the innate immune system from either phytoestrogens in hops, or detritus from fermentation permitting the fungal colonization seen in AD brains.
Characterization of the olfactory system in Apis dorsata, an Asian honey bee
Authors: Mogily Sandhya , VijayKumar Meenakshi , Sethy Sunil Kumar , Joseph Joby 
Published: September 2018

AbstractThe European honeybee, Apis mellifera is the most common insect model system for studying learning and memory. We establish that the olfactory system of Apis dorsata, an Asian species of honeybee as an equivalent model to Apis mellifera to study physiology underlying learning and memory. We created an Atlas of the antennal lobe and counted the number of glomeruli in the antennal lobe of Apis dorsata to be around 165 which is similar to the number in the other honey bee species Apis mellifera and Apis florea. Apis dorsata was found to have five antenno-cerebral tracts namely mACT, lACT and 3 mlACTS which appear identical to Apis mellifera. Intracellular recording showed that the antennal lobe interneurons exhibit temporally patterned odor-cell specific responses. The neuritis of Kenyon cells with cell bodies located in a neighborhood in calyx retain their relative neighborhoods in the peduncle and alpha lobe forming a columnar organization in the mushroom body. Alpha lobe and the calyx of the mushroom body were innervated by extrinsic neurons with cell bodies in the lateral protocerebrum. A set of GABA positive cells in the lateral protocerebrum send their neurites towards alpha-lobe. Apis dorsata was amenable to olfactory conditioning and showed good learning and memory retention at 24 hours. They were amenable to massed and spaced conditioning and could distinguish trained odor from an untrained novel odor.
Objective versus Self-Reported Energy Intake Changes During Low-Carbohydrate and Low-Fat Diets
Authors: Guo Juen , Robinson Jennifer L. , Gardner Christopher , Hall Kevin D. 
Published: September 2018

AbstractObjectiveTo examine objective versus self-reported energy intake changes (ΔEI) during a 12-month diet intervention.MethodsWe calculated ΔEI in subjects who participated in a 1-year randomized low-carbohydrate versus low-fat diet trial using repeated body weight measurements as inputs to an objective mathematical model (ΔEIModel) and compared these values with self-reported energy intake changes assessed by repeated 24-hr recalls (ΔEI24hrRecall).ResultsΔEI24hrRecall indicated a relatively persistent state of calorie restriction ≥500 kcal/d throughout the year with no significant differences between diets. ΔEIModel demonstrated large early decreases in calorie intake >800 kcal/d followed by an exponential return to approximately 100 kcal/d below baseline at the end of the year. The low-carbohydrate diet resulted in ΔEIModel that was 162±53 kcal/d lower than the low-fat diet over the first 3 months (p=0.002), but no significant diet differences were found at later times. Weight loss at 12 months was significantly related to ΔEIModel at all time intervals for both diets (p<0.0001).ConclusionsSelf-reported measurements of ΔEI were inaccurate. Model-based calculations of ΔEI found that instructions to follow the low-carbohydrate diet resulted in greater calorie restriction than the low-fat diet in the early phases of the intervention, but these diet differences were not sustained.What is already known about this subject?Diet assessments that rely on self-report, such as 24hr dietary recall, are known to underestimate actual energy intake as measured by doubly labeled water. However, it is possible that repeated self-reported measurements could accurately detect changes in energy intake over time if the absolute bias of self-reported of measurements is approximately constant for each subject.What this study addsWe compared energy intake changes measured using repeated 24hr dietary recall measurements collected over the course of the 1-year Diet Intervention Examining The Factors Interacting with Treatment Success (DIETFITS) trial versus energy intake changes calculated using repeated body weight measurements as inputs to a validated mathematical model.Whereas self-reported measurements indicated a relatively persistent state of calorie restriction, objective model-based measurements demonstrated a large early calorie restriction followed by an exponential rise in energy intake towards the pre-intervention baseline.Model-based calculations, but not self-reported measurements, found that low-carbohydrate diets led to significantly greater early decreases in energy intake compared to low-fat diets, but long-term energy intake changes were not significantly different.
Whole transcriptome sequencing and biomineralization gene architecture associated with cultured pearl quality traits in the pearl oyster, Pinctada margaritifera
Authors: Le Luyer J. , Auffret P. , Quillien V. , Leclerc N. , Reisser C. , Vidal-Dupiol J. , Ky C.-L. 
Published: September 2018

AbstractBackgroundCultured pearls are unique gems produced by living organisms, mainly molluscs of the Pinctada genus, through the biomineralization properties of pearl sac tissue. Improvement of P. margaritifera pearl quality is one of the biggest challenges that Polynesian research has faced to date. To achieve this goal, a better understanding of the complex mechanisms related to nacre and pearl formation is essential and can now be approached through the use of massive parallel sequencing technologies. The aim of this study was to use RNA-seq to compare whole transcriptome expression of pearl sacs that had producing pearls with high and low quality. For this purpose, a comprehensive reference transcriptome of P. margaritifera was built based on multi-tissue sampling (mantle, gonad, whole animal), including different living stages (juvenile, adults) and phenotypes (colour morphotypes, sex).ResultsStrikingly, few genes were found to be up-regulated for high quality pearls (n = 16) compared to the up-regulated genes in low quality pearls (n = 246). Biomineralization genes up-regulated in low quality pearls were specific to prismatic and prism-nacre layers. Alternative splicing was further identified in several key biomineralization genes based on a recent P. margaritifera draft genome.ConclusionThis study lifts the veil on the multi-level regulation of biomineralization genes associated with pearl quality determination.
MOSim: bulk and single-cell multi-layer regulatory network simulator
Authors: Monzó Carolina , Aguerralde-Martin Maider , Martínez-Mira Carlos , Arzalluz-Luque Ángeles , Conesa Ana , Tarazona Sonia 
Published: September 2018

AbstractAs multi-omics sequencing technologies advance, the need for simulation tools capable of generating realistic and diverse (bulk and single-cell) multi-omics datasets for method testing and benchmarking becomes increasingly important. We present MOSim, an R package that simulates both bulk (via mosim function) and single-cell (via sc_mosim function) multi-omics data. The mosim function generates bulk transcriptomics data (RNA-seq) and additional regulatory omics layers (ATAC-seq, miRNA-seq, ChIP-seq, Methyl-seq and Transcription Factors), while sc_mosim simulates single-cell transcriptomics data (scRNA-seq) with scATAC-seq and Transcription Factors as regulatory layers. The tool supports various experimental designs, including simulation of gene co-expression patterns, biological replicates, and differential expression between conditions.MOSim enables users to generate quantification matrices for each simulated omics data type, capturing the heterogeneity and complexity of bulk and single-cell multi-omics datasets. Furthermore, MOSim provides differentially abundant features within each omics layer and elucidates the active regulatory relationships between regulatory omics and gene expression data at both bulk and single-cell levels.By leveraging MOSim, researchers will be able to generate realistic and customizable bulk and single-cell multi-omics datasets to benchmark and validate analytical methods specifically designed for the integrative analysis of diverse regulatory omics data.Key PointsMOSim is capable of generating synthetic datasets for a broad spectrum of omics types, supporting bulk RNA-seq, ChIP-seq, ATAC-seq, miRNA-seq, Methyl-seq, and transcription factor data, as well as single-cell omics, including scRNA-seq, scATAC-seq, and transcription factors.MOSim enables the robust simulation of complex, many-to-many regulatory relationships across molecular layers, faithfully capturing intricate regulatory patterns.Offering extensive options for customization, MOSim’s flexible experimental design and parameterization empowers users to simulate count matrices and multilayer regulatory networks, tailoring simulations to diverse experimental scenarios and omics types.
Male Anolis lizards prefer virgin females
Authors: Stapley Jessica 
Published: September 2018

AbstractMales can gain fitness benefits by preferentially courting and mating with virgin females if they represent a lower risk of sperm competition. When females mate multiply, but do not remate frequently, males can experience a lower level of sperm competition when mating with virgins. Male preference for virgins has been demonstrated many times in invertebrates but rarely in vertebrates. In this study, I tested if Anolis apletophallus males preferentially courted virgin females more than non-virgin females, in two-choice trails where the virgin was smaller than the non-virgin, and trails where the females were size-matched. In both trails males preferentially courted the virgin females more than non-virgin females. This suggests males can discriminate between females based on their reproductive history and that they do not use body size as a cue. Males most likely used visual signals from the female, although these signals could not be identified in this study. This is only the second study to show male preference for virgins in vertebrates. Although it is possible that male preference for virgins is relatively rare in vertebrates, I argue that certain life history traits, namely, where large females do not have reproductive benefits, and or when sperm is stored between subsequent reproductive events this preference function can evolve. Future studies focusing on such systems are likely to be fruitful with respect to this male mating preference and may help us to better understand the evolution of male mating preferences and female traits.
Actomyosin controls planarity and folding of epithelia in response to compression
Authors: Wyatt Tom P. J. , Fouchard Jonathan , Lisica Ana , Khalilgharibi Nargess , Baum Buzz , Recho Pierre , Kabla Alexandre J. , Charras Guillaume T. 
Published: September 2018

ABSTRACTThroughout embryonic development and adult life, epithelia are subjected to external forces. The resulting deformations can have a profound impact on tissue development and function. These include compressive deformations which, although hard to study in model systems due to the confounding effects of the substrate, are thought to play an important role in tissue morphogenesis by inducing tissue folding and by triggering mechanosensitive responses including cell extrusion and cell differentiation. Here, using suspended epithelia, we are able to uncover the immediate response of epithelial tissues to the application of large (5-80%) in-plane compressive strains. We show that fast compression induces tissue buckling followed by active tissue flattening which erases the buckle within tens of seconds. Strikingly, there is a well-defined limit to this second response, so that stable folds form in the tissue for compressive strains larger than ∼35%. Finally, a combination of experiment and modelling shows that the response to compression is orchestrated by the automatic adaptation of the actomyosin cytoskeleton as it re-establishes tension in compressed tissues. Thus, tissue pre-tension allows epithelia to both buffer against fast compression and regulate folding.
Defensive symbiosis and the evolution of virulence
Authors: Nelson Paul G. , May Georgiana 
Published: September 2018

AbstractAlthough environments rife with enemies should cause selection for defensive traits, such enemy-rich environments should also select for greater virulence in co-occurring symbionts, yet many defensive symbionts cause little to no damage while protecting their hosts from enemies. Thus, co-infection of a defensive symbiont and a parasite is predicted to select both for increased virulence in co-infecting symbionts and for increased defense in the protective symbiont. Why then do we observe defensive mutualists that protect hosts while causing little damage? To address this question, we build a symbiont-centered model that incorporates the evolution of two independent traits: defense and virulence. Virulence is modeled as a continuous trait spanning mutualism (negative virulence) and parasitism (virulence) and thus accounts for the entire range of direct effects that symbionts have on host mortality. Defense is modeled as a continuous trait that ameliorates the costs to the host associated with co-infection with a deleterious parasite. We obtain the counterintuitive result that the evolution of increased defense in one symbiont largely leads to the evolution of lower virulence in both symbionts and may even facilitate pathogens evolving to mutualism. However, results are context-dependent and when defensive traits are costly, the evolution of greater defense may also lead to higher virulence.
Arabidopsis and Chlamydomonas phosphoribulokinase crystal structures complete the redox structural proteome of the Calvin-Benson cycle
Authors: Gurrieri Libero , Del Giudice Alessandra , Demitri Nicola , Falini Giuseppe , Pavel Nicolae Viorel , Zaffagnini Mirko , Polentarutti Maurizio , Crozet Pierre , Marchand Christophe H. , Henri Julien , Trost Paolo , Lemaire Stéphane D. , Sparla Francesca , Fermani Simona 
Published: September 2018

AbstractIn land plants and algae, the Calvin-Benson (CB) cycle takes place in the chloroplast, a specialized organelle in which photosynthesis occurs. Thioredoxins (TRXs) are small ubiquitous proteins, known to harmonize the two stages of photosynthesis through a thiol-based mechanism. Among the 11 enzymes of the CB cycle, the TRX target phosphoribulokinase (PRK) has yet to be characterized at the atomic scale. To accomplish this goal, we determined the crystal structures of PRK from two model species: the green alga Chlamydomonas reinhardtii (CrPRK) and the land plant Arabidopsis thaliana (AtPRK). PRK is an elongated homodimer characterized by a large central β-sheet of 18 strands, extending between two catalytic sites positioned at its edges. The electrostatic surface potential of the catalytic cavity has both a positive region suitable for binding the phosphate groups of substrates and an exposed negative region to attract positively charged TRX-f. In the catalytic cavity, the regulatory cysteines are 13 Å apart and connected by a flexible region exclusive to photosynthetic eukaryotes—the clamp loop—which is believed to be essential for oxidation-induced structural rearrangements. Structural comparisons with prokaryotic and evolutionarily older PRKs revealed that both AtPRK and CrPRK have a strongly reduced dimer interface and increased number of random coiled regions, suggesting that a general loss in structural rigidity correlates with gains in TRX sensitivity during the molecular evolution of PRKs in eukaryotes.Significance StatementIn chloroplasts, five enzymes of the Calvin-Benson (CB) cycle are regulated by thioredoxins (TRXs). These enzymes have all been structurally characterized with the notable exception of phosphoribulokinase (PRK). Here, we determined the crystal structure of chloroplast PRK from two model photosynthetic organisms. Regulatory cysteines appear distant from each other and are linked by a long loop that is present only in plant-type PRKs and allows disulfide bond formation and subsequent conformational rearrangements. Structural comparisons with ancient PRKs indicate that the presence of flexible regions close to regulatory cysteines is a unique feature that is shared by TRX-dependent CB cycle enzymes, suggesting that the evolution of the PRK structure has resulted in a global increase in protein flexibility for photosynthetic eukaryotes.
Reduced prediction error responses in high- as compared to low-uncertainty musical contexts
Authors: Quiroga-Martinez D.R. , Hansen N.C. , Højlund A. , Pearce M. , Brattico E. , Vuust P. 
Published: September 2018

AbstractTheories of predictive processing propose that prediction error responses are modulated by the certainty of the predictive model or precision. While there is some evidence for this phenomenon in the visual and, to a lesser extent, the auditory modality, little is known about whether it operates in the complex auditory contexts of daily life. Here, we examined how prediction error responses behave in a more complex and ecologically valid auditory context than those typically studied. We created musical tone sequences with different degrees of pitch uncertainty to manipulate the precision of participants’ auditory expectations. Magnetoencephalography was used to measure the magnetic counterpart of the mismatch negativity (MMNm) as a neural marker of prediction error in a multi-feature paradigm. Pitch, slide, intensity and timbre deviants were included. We compared high-entropy stimuli, consisting of a set of non-repetitive melodies, with low-entropy stimuli consisting of a simple, repetitive pitch pattern. Pitch entropy was quantitatively assessed with an information-theoretic model of auditory expectation. We found a reduction in pitch and slide MMNm amplitudes in the high-entropy as compared to the low-entropy context. No significant differences were found for intensity and timbre MMNm amplitudes. Furthermore, in a separate behavioral experiment investigating the detection of pitch deviants, similar decreases were found for accuracy measures in response to more fine-grained increases in pitch entropy. Our results are consistent with a precision modulation of auditory prediction error in a musical context, and suggest that this effect is specific to features that depend on the manipulated dimension—pitch information, in this case.HighlightsThe mismatch negativity (MMNm) is reduced in musical contexts with high pitch uncertaintyThe MMNm reduction is restricted to pitch-related featuresAccuracy during deviance detection is reduced in contexts with higher uncertaintyThe results suggest a feature-selective precision modulation of prediction errorMaterials, data and scripts can be found in the Open Science Framework repository: http://bit.ly/music_entropy_MMNDOI: 10.17605/OSF.IO/MY6TE