bluuebunny/crossref_metadata_2025_split huggingface dataset:
A guide to preprinting for early-career researchers
Authors: Ettinger Cassandra L. , Sadanandappa Madhumala K. , Görgülü Kıvanç , Coghlan Karen L. , Hallenbeck Kenneth K. , Puebla Iratxe 
Published: July 2022

ABSTRACT
The use of preprints, research manuscripts shared publicly before completing the traditional peer-review process, is becoming a more common practice among life science researchers. Early-career researchers (ECRs) benefit from posting preprints as they are shareable, citable, and prove productivity. However, preprinting a manuscript involves a discussion among all co-authors, and ECRs are often not the decision-makers. Therefore, ECRs may find themselves in situations where they are interested in depositing a preprint but are unsure how to approach their co-authors or advisor about preprinting. Leveraging our own experiences as ECRs, and feedback from the research community, we have constructed a guide for ECRs who are considering preprinting to enable them to take ownership over the process and to raise awareness about preprinting options. We hope that this guide helps ECRs to initiate conversations about preprinting with co-authors and encourage them to preprint their future research.
Severe cerebellar malformations in mutant mice demonstrate a role for PDGF-C/PDGFRα signalling in cerebellar development
Authors: Gillnäs Sara , Gallini Radiosa , He Liqun , Betsholtz Christer , Andrae Johanna 
Published: July 2022

ABSTRACT
Formation of the mouse cerebellum is initiated in the embryo and continues for a few weeks after birth. Double-mutant mice lacking platelet-derived growth factor C (PDGF-C) and that are heterozygous for platelet-derived growth factor receptor alpha (Pdgfc-/-; PdgfraGFP/+) develop cerebellar hypoplasia and malformation with loss of cerebellar lobes in the posterior vermis. This phenotype is similar to those observed in Foxc1 mutant mice and in a human neuroimaging pattern called Dandy Walker malformation. Pdgfc-Pdgfra mutant mice also display ependymal denudation in the fourth ventricle and gene expression changes in cerebellar meninges, which coincide with the first visible signs of cerebellar malformation. Here, we show that PDGF-C/PDGFRα signalling is a critical component in the network of molecular and cellular interactions that take place between the developing meninges and neural tissues, and which are required to build a fully functioning cerebellum.
Bmp7 drives proximal tubule expansion and determines nephron number in the developing kidney
Authors: Taglienti Mary , Graf Daniel , Schumacher Valerie , Kreidberg Jordan A. 
Published: July 2022

ABSTRACT
The mammalian kidney is composed of thousands of nephrons that are formed through reiterative induction of a mesenchymal-to-epithelial transformation by a population of nephron progenitor cells. The number of nephrons in human kidneys ranges from several hundred thousand to nearly a million, and low nephron number has been implicated as a risk factor for kidney disease as an adult. Bmp7 is among a small number of growth factors required to support the proliferation and self-renewal of nephron progenitor cells, in a process that will largely determine the final nephron number. Once induced, each nephron begins as a simple tubule that undergoes extensive proliferation and segmental differentiation. Bmp7 is expressed both by nephron progenitor cells and the ureteric bud derivative branches that induce new nephrons. Here, we show that, in mice, Bmp7 expressed by progenitor cells has a major role in determining nephron number; nephron number is reduced to one tenth its normal value in its absence. Postnatally, Bmp7 also drives proliferation of the proximal tubule cells, and these ultimately constitute the largest segment of the nephron. Bmp7 appears to act through Smad 1,5,9(8), p38 and JNK MAP kinase. In the absence of Bmp7, nephrons undergo a hypertrophic process that involves p38. Following a global inactivation of Bmp7, we also see evidence for Bmp7-driven growth of the nephron postnatally. Thus, we identify a role for Bmp7 in supporting the progenitor population and driving expansion of nephrons to produce a mature kidney.
A genetic labeling system to study dendritic spine development in zebrafish models of neurodevelopmental disorders
Authors: DeMarco Elisabeth C. , Stoner George R. , Robles Estuardo 
Published: July 2022

ABSTRACT
Dendritic spines are the principal site of excitatory synapse formation in the human brain. Several neurodevelopmental disorders cause spines to develop abnormally, resulting in altered spine number and morphology. Although spine development has been thoroughly characterized in the mammalian brain, spines are not unique to mammals. We have developed a genetic system in zebrafish to enable high-resolution in vivo imaging of spine dynamics during larval development. Although spiny neurons are rare in the larval zebrafish, pyramidal neurons (PyrNs) of the zebrafish tectum form an apical dendrite containing a dense array of dendritic spines. To characterize dendritic spine development, we performed mosaic genetic labeling of individual PyrNs labeled by an id2b:gal4 transgene. Our findings identify a developmental period during which PyrN dendrite growth is concurrent with spine formation. Throughout this period, motile, transient filopodia gradually transform into stable spines containing postsynaptic specializations. The utility of this system to study neurodevelopmental disorders was validated by examining spine development in fmr1 mutant zebrafish, a model of fragile X syndrome. PyrNs in fmr1 mutants exhibited pronounced defects in dendrite growth and spine stabilization. Taken together, these findings establish a genetic labeling system to study dendritic spine development in larval zebrafish. In the future, this system could be combined with high-throughput screening approaches to identify genes and drug targets that regulate spine formation.
Το πένθος «αντ’ αυτού»: αισθητηριακές διαφορές και το κοινωνικό τραύμα των αυτιστικών
Authors: Μαρινούδη Σούλα 
Published: July 2022

Το άρθρο αυτό εξετάζει τα βιώματα των αυτιστικών μέσα σε συστήματα κοινωνικών σχέσεων που διέπονται από πολιτισμικές αναπαραστάσεις. Η έννοια του «πένθους», που συχνά περιγράφει τη συναισθηματική διαδικασία των γονέων σχετικά με τη διάγνωση των παιδιών τους και τη ζωή μαζί τους, αποκτά νόημα μέσα σε συγκεκριμένο κοινωνικό πλαίσιο. Σε αντιδιαστολή με τις αποπλαισιωμένες ιατρικές αντιλήψεις που επικρατούν στην προσέγγιση του αυτισμού, το άρθρο επικεντρώνεται στη διαφορετικότητα των σωματικών, αισθητηριακών, αντιληπτικών εμπειριών των αυτιστικών από τις κοινωνικά υποχρεωτικές συμπεριφορές, καθώς και στη δυσκολία να αναπαρασταθούν αυτές γλωσσικά. Η αναλυτική επεξεργασία της κοινωνικά μη αναμενόμενης διατάραξης ανάμεσα στη γλωσσική έκφραση και το σωματικό/ συν-αισθηματικό βίωμα επιδιώκει να συμβάλει στη συζήτηση για τη σχέση αναπηρίας και βλάβης, κοινωνίας και υποκειμένου. Προτείνεται το ότι η αποδοχή της διαφοράς των αυτιστικών σε έναν ορίζοντα σωματικής και νευρολογικής ποικιλομορφίας και όχι απόκλισης από τις νόρμες προϋποθέτει τον επαναπροσδιορισμό κατηγοριών που αφορούν την ταυτότητα, τον εαυτό, τη σωματοποίηση, τον πολιτισμό.
Humoral immunity indicators as prediction factors for dysbiosis development risk
Authors: Hryzevskyi O. , Minukhin V. , Kobylnik S. , Dzygal O. , Shumilina K. 
Published: July 2022

Diseases associated with bacterial vaginosis lead to chronic inflammatory processes of the internal genitals, the development of adhesions of the pelvic organs, infertility, spontaneous abortion at different times, as well as the development of malignant neoplasms. Vaginal microflora is an indicator of a woman's health which can form changing in hormonal and immunological status during various pathological conditions. The aim of the study was to create a system for prediction of the dysbiosis development according to the levels of nonspecific humoral factor of immune defence.
The study was performed in 298 women aged 16 to 64 years, 53 of whom were diagnosed with normocenosis, and 245 have dysbiosis. Women were divided into 3 groups according to age. Regression analysis was used.
Our previous researches have shown a correlation between increased levels of anti-inflammatory cytokines in the blood and vaginal secretions with the stage of dysbiosis. A logistic regression model was constructed during the study, which showed that the risk of developing dysbiosis in terms of normobiota increases with increasing levels of interleukin 2 in the blood, tumor necrosis factor α. Significant features of the three-factor model for predicting the risk of developing dysbiosis (IL2, IL4 and TNFα) were selected by the method of genetic algorithm. The levels of these indicators in the blood were related to the severity of dysbiosis according to the results of discriminant analysis. Thus, a linear neural network model was developed for determination of dysbiosis severity according to the levels of nonspecific humoral factors of immune defence such as the C4 component of the complement system and γ-interferon in vaginal secretions, as well as the amount of circulating immune complexes and tumor necrosis factor α in the blood. Kappa Cohen's agreement for this model on the training set was 0.87 (95% CI 0.82-0.91), and on the confirmatory set was 0.89 (95% CI 0.77-1.00). These indicators show the adequacy of the constructed model. The interface of the expert system for the dysbiosis severity prediction has been created.
Branch-Cut-and-Price for the Time-Dependent Green Vehicle Routing Problem with Time Windows
Authors: Liu Yiming , Yu Yang , Zhang Yu , Baldacci Roberto , Tang Jiafu , Luo Xinggang , Sun Wei 
Published: July 2022

Motivated by rising concerns regarding global warming and traffic congestion effects, we study the time-dependent green vehicle routing problem with time windows (TDGVRPTW), aiming to minimize carbon emissions. The TDGVRPTW is a variant of the time-dependent vehicle routing problem (TDVRP) in which, in addition to the time window constraints, the minimization of carbon emissions requires determination of the optimal departure times for vehicles, from both the depot and customer location(s). Accordingly, the first exact method based on a branch-cut-and-price (BCP) algorithm is proposed for solving the TDGVRPTW. We introduce the notation of a time-dependent (TD) arc and describe how to identify the nondominated TD arcs in terms of arc departure times. In this way, we reduce infinitely many TD arcs to a finite set of nondominated TD arcs. We design a state-of-the-art BCP algorithm for the TDGVRPTW with labeling and limited memory subset row cuts, together with effective dominance rules for eliminating dominated TD arcs. The exact method is tested on a set of test instances derived from benchmark instances proposed in the literature. The results show the effectiveness of the proposed exact method in solving TDGVRPTW instances involving up to 100 customers. Summary of Contribution: Due to the environmental situation, green vehicle routing problems (GVRPs) aim to consider greenhouse gas emissions reduction, while routing the vehicles, and play a key role in transportation and logistics. Vehicle greenhouse gas emissions strongly depend on the vehicle speeds and traffic conditions which in real life vary continuously over time. To tackle these challenges, we address the time-dependent green vehicle routing problem with time windows (TDGVRPTW) aimed at reducing total carbon emissions under time-dependent travel times and time window constraints. We design an effective exact method for the TDGVRPTW based on a state-of-the-art branch-cut-and-price algorithm. The paper is both of methodological value for researchers and of interest for practitioners. For researchers, the presented algorithm is amenable for various routing constraints and provides a ground for further studies and research. For practitioners, the paper suggests insights on how the carbon emissions change based on different vehicle speed profiles. History: Accepted by Andrea Lodi, Area Editor for Design & Analysis of Algorithms—Discrete. Funding: This research is supported by the National Natural Science Foundation of China [Grants 71831003, 71831006, 72171043, and 71901180] and the Fundamental Research Funds for the Central Universities [Grants N170405005 and N180704015]. Supplemental Material: The electronic companion is available at https://doi.org/10.1287/ijoc.2022.1195 .
Someone Else to Blame: The Effectiveness of Egocentric and Alter-Centric Impression Management Tactics in the U.S. Food Retail Industry
Authors: Diestre Luis , Montauti Martina , Pinto de Sousa Helena 
Published: July 2022

We investigate the effectiveness of two types of impression management tactics implemented around negative attributes: egocentric (claiming the absence or low presence of a negative attribute in a focal organization) and alter-centric tactics (claiming the greater presence of a negative attribute in an organization’s competitor). We claim that the effectiveness of each tactic depends on the risk of audiences’ skepticism, which stems from the incongruence between the information conveyed in the tactic and audiences’ default expectations about the presence of the attribute among members of a given market segment. Audiences expect a conspicuous presence of the attribute, we propose, the more stakeholders contest a market segment for that very attribute. Thus, we advance that egocentric (alter-centric) tactics are less likely to be effective for contested (uncontested) attributes because the information conveyed in such tactics clashes with audiences’ default expectations, triggering skepticism. We find support for our predictions looking at the impact of nutrient content claims on product sales in the U.S. food retail industry between 2006 and 2015.Funding: H. Pinto de Sousa acknowledges the support, in the form of a research scholarship, granted by the Portuguese Foundation for Science and Technology (Fundação para a Ciência e Tecnologia), under the European Social Fund and the Human Capital Operational Program (Programa Operacional Capital Humano) funding program [Grant SFRH/BD/128536/2017].Supplemental Material: The online appendix is available at https://doi.org/10.1287/orsc.2022.1612 .
Presentation and management of mandibular anterior tooth wear
Authors: Leven A Johanna , Némat Shimal M 
Published: July 2022

Mandibular anterior tooth wear, while sometimes simple to manage, can present a restorative challenge. The evidence on management of worn lower anterior teeth is limited to small case series because the majority of the literature in this field is focused on outcomes in the maxillary arch. This article discusses the presentation and available treatment techniques to manage mandibular anterior tooth wear from a summary of the existing literature and the authors' own experiences.CPD/Clinical Relevance: Mandibular anterior tooth wear can be challenging to manage.
Hydrologic Effects of Fire in a Sub-Alpine Watershed: AgES Outperforms Previous PRMS Simulations
Authors: Mankin Kyle R. , Wells Ryan , Kipka Holm , Green Timothy R. , Barnard David 
Published: July 2022

HighlightsAgES and PRMS accurately simulated the dramatic change in streamflow response to precipitation after fire.Measured annual streamflow increased by 170% in 4-year postfire period with similar precipitation.Postfire AgES parameters were drastically reduced for snow and rain interception, canopy density, and ET.Decreased soil depression storage and field capacity also contributed to increased streamflow in AgES.AgES shows promise for simulating hydrologic impacts of sub-alpine forest resource management and fire response.Abstract. Forest fires alter hydrologic responses to precipitation, and streamflow changes can be challenging to simulate. Streamflow data before and after wildfire in a 14 km2 mixed-conifer, sub-alpine watershed in south-central New Mexico were used to calibrate a watershed model (Agricultural Ecosystems Services, AgES) using four years of prefire and postfire conditions. Streamflow results and parameter values from AgES and a prior Precipitation Runoff Modeling System (PRMS) modeling study in the same watershed were compared. Both AgES and PRMS simulated the dramatic change in streamflow response to precipitation after a fire, including a smaller precipitation threshold to induce streamflow. Still, AgES had substantially less bias and better performance when comparing monthly metrics. Only AgES was assessed at the daily scale. AgES simulated daily streamflow accurately throughout the study period, with slight overestimation in the prefire period (Oct 2007 to Oct 2011, 1.2% bias, 0.90 Nash-Sutcliffe efficiency [NSE]) and in the postfire period (Oct 2013 to Oct 2017, 4.4% bias, 0.54 NSE). Although each 4-year model period had nearly identical cumulative precipitation, annual streamflow increased by 170% in the postfire period compared to the prefire period. Appropriate soil and vegetation parameters were modified by the stepwise calibration process to represent the effects of fire in AgES: interception storage was decreased for rain (-99.8%) and snow (-26%), two factors influencing ET were decreased, soil depression storage was reduced (-97%), and soil field capacity was reduced (-50%). AgES demonstrated an improved streamflow simulation compared with PRMS, calibrated parameter shifts that were more consistent to interpret, and particular skill in simulating daily streamflow response to fire. Knowledge gained from this study will guide future simulations of hydrologic responses to fires in the western USA using AgES. Keywords: Agricultural Ecosystems Services model, Forest, Landscape change, Precipitation-Runoff Modeling System, Streamflow change, Surface hydrology, Wildfire.
Response of Soil and Crop to Mixed Irrigation Using Brackish and Reclaimed Water
Authors: Wang Juan 
Published: July 2022

HighlightsMixed irrigation with brackish water-reclaimed water was introduced.IBRv2 was used to evaluate the effects of mixed irrigation on the soil–crop system.Reclaimed water could be used as an alternative source of freshwater to mix with brackish water, and the suitable mixed proportion should be 1:1 based on IBRv2.Abstract. To explore the reasonable utilization of brackish water in areas where freshwater is scarce, we used pot experiments to study the physical, chemical, and biological properties of soil and crop yield characteristics under mixed irrigation using brackish–reclaimed water at different ratios. There were six treatments, including brackish water irrigation (T1); mixed irrigation using brackish–reclaimed water at 1:1 (T2), 1:2 (T3), and reclaimed water irrigation (T4); pots with plants irrigated with freshwater (CK2); and pots without plants irrigated with freshwater (CK1) as the control. The salinity of the brackish water was 3 g L-1 (6.1 dS m-1). The results indicated that compared to T1, with the increase in the proportion of reclaimed water in the mixture, the water and salt contents in the soil gradually decreased significantly; the K+, Ca2+, and SO42– contents demonstrated an increasing trend; the Na+, Cl–, HCO3–, and Mg2+ contents showed a descending to ascending trend; and the soil water drop penetration time decreased first and then increased slightly. At the same time, the soil organic matter displayed an opposite trend, and the chlorophyll content of leaves and crop biomass both changed with an “N”-style curve. Differences existed in the responses of soil enzyme activities to different mixed water mixtures. There was a slight decrease in the enzyme activity, except for sucrase under T2 and T3. The Integrated Biological Response Version 2 (IBRv2) scored 3.97 in T2. Therefore, considering the characteristics of the soil and crop and the limits of reclaimed water, reclaimed water could be used as an alternative source of freshwater to mix with brackish water, and the suitable mixed proportion should be 1:1 based on IBRv2. Keywords: Brackish water, IBRv2, Reclaimed water, Repellency.
A user preference analysis of commercial breath ketone sensors to inform the development of portable breath ketone sensors for diabetes management in young people
Authors: Brew-Sam Nicola , Desborough Jane , Parkinson Anne , Murugappan Krishnan , Daskalaki Eleni , Brown Ellen , Ebbeck Harry , Pedley Lachlan , Hannon Kristal , Brown Karen , Pedley Elizabeth , Ebbeck Genevieve , Tricoli Antonio , Suominen Hanna , Nolan Christopher J. , Phillips Christine 
Published: July 2022

Background
Portable breath ketone sensors may help people with Type 1 Diabetes Mellitus (T1DM) avoid episodes of diabetic ketoacidosis; however, the design features preferred by users have not been studied. We aimed to elucidate breath sensor design preferences of young people with T1DM (age 12 to 16) and their parents to inform the development of a breath ketone sensor prototype that would best suit their diabetes management needs.

Research designs and methods
To elicit foundational experiences from which design preference ideas could be generated, two commercially available breath ketone sensors, designed for ketogenic diet monitoring, were explored over one week by ten young people with T1DM. Participants interacted with the breath ketone sensing devices, and undertook blood ketone testing, at least twice daily for five days to simulate use within a real life and ambulatory care setting. Semi-structured interviews were conducted post-testing with the ten young participants and their caregivers (n = 10) to elicit preferences related to breath sensor design and use, and to inform the co-design of a breath ketone sensor prototype for use in T1DM self-management. We triangulated our data collection with key informant interviews with two diabetes educators working in pediatric care about their perspectives related to young people using breath ketone sensors.

Results
Participants acknowledged the non-invasiveness of breath sensors as compared to blood testing. Affordability, reliability and accuracy were identified as prerequisites for breath ketone sensors used for diabetes management. Design features valued by young people included portability, ease of use, sustainability, readability and suitability for use in public. The time required to use breath sensors was similar to that for blood testing. The requirement to maintain a 10-second breath exhalation posed a challenge for users. Diabetes educators highlighted the ease of use of breath devices especially for young people who tended to under-test using blood ketone strips.

Conclusions
Breath ketone sensors for diabetes management have potential that may facilitate ketone testing in young people. Our study affirms features for young people that drive usability of breath sensors among this population, and provides a model of user preference assessment.