bluuebunny/crossref_metadata_2025_split huggingface dataset:
deCLUTTER2+pipeline to analyze calcium traces in a novel stem cell model for ventral midbrain patterned astrocytes
Authors: Grochowska Martyna M. , Ferraro Federico , Mascaro Ana Carreras , Natale Domenico , Winkelaar Amber , Boumeester Valerie , Breedveld Guido J. , Bonifati Vincenzo , Mandemakers Wim 
Published: November 2022

AbstractAstrocytes are the most populous cell type of the human central nervous system and are essential for physiological brain function. Increasing evidence suggests multiple roles for astrocytes in Parkinson’s disease (PD), nudging a shift in the research focus, which historically pivoted around the ventral midbrain dopaminergic neurons (vmDANs). Studying human astrocytes and other cell types in vivo remains technically and ethically challenging. However, in vitro reprogrammed human stem cell-based models provide a promising alternative. Here, we describe a novel protocol for astrocyte differentiation from human stem cell-derived vmDANs-generating progenitors. This protocol simulates the regionalization, gliogenic switch, radial migration, and final differentiation that occur in the developing human brain. We have characterized the morphological, molecular, and functional features of these ventral midbrain astrocytes with a broad palette of techniques. In addition, we have developed a new pipeline for calcium imaging data analysis called deCLUTTER2+(deconvolution ofCa2+fluorescent patterns) that can be used to discover spontaneous or cue-dependent patterns of Ca2+transients. Altogether, our protocol enables the characterization of the functional properties of human ventral midbrain astrocytes under physiological conditions and in PD.
Synergism and phytotoxicity: the effects of tank-mix additives on the biological efficacy of Cu2+againstVenturia inaequalisandPodosphaera leucotricha
Authors: Schmitz Christine , Luedeling Eike , Pariyar Shyam 
Published: November 2022

SummaryThe wetting behaviour of the spray and biological efficacy of Cu2+active ingredients in agrochemical formulations may be enhanced by tank-mix additives. We investigated how three BREAK-THRU®additives (BT301: biodegradable, BT133 and BT420: bio-based and biodegradable) as tank-mix with commercial copper preparations influence the spray distribution, leaf uptake and biological efficacy of copper additive mixtures against apple scab and apple powdery mildew under controlled conditions. We quantified the synergetic effects of these additives in foliar applications. In addition, we determined the phytotoxic potential and evaluated impacts on photosynthetic activity, non-photochemical quenching and ROS activity. The additives BT301 and BT420 strongly reduced surface tension and contact angle of copper treatments. The fluorescence observations revealed that BT301 achieved better spreading of copper formulation with more complete coverage of the leaf surface than BT420 and BT133, whereas “coffee-ring” spreading was observed with BT133. The additive BT301 showed an increase in relative fluorescence area, indicating higher ROS production as a signal of intra-cellular tissue activity. The photochemical efficiency of photosystem II (Fv/Fm) was not negatively influenced by copper or additive treatment. Thus, we observed no phytotoxic effects of copper-additive mixtures on apple leaves at treatment doses of 4 g Cu2+L-1. All copper treatments reduced apple scab infestations significantly, by 53-76%. Interestingly, addition of BT301 to copper preparations showed the strongest biological efficacy (83% reduction) againstV. inaequalis, whereas addition of BT420 showed the strongest effect againstP. leucotricha(89% infection reduction). The synergetic effects of additives on the biological efficacy without phytotoxic effects on plants may have potential for reducing copper loads in horticultural production systems.
Sex-biased gene expression at single-cell resolution: Cause and consequence of sexual dimorphism
Authors: Darolti Iulia , Mank Judith E. 
Published: November 2022

AbstractGene expression differences between males and females are thought to be key for the evolution of sexual dimorphism, and sex-biased genes are often used to study the molecular footprint of sex-specific selection. However, gene expression is often measured from complex aggregations of diverse cell types, making it difficult to distinguish between sex differences in expression that are due to regulatory rewiring within similar cell types and those that are simply a consequence of developmental differences in cell type abundance. To determine the role of regulatory versus developmental differences underlying sex-biased gene expression, we use single-cell transcriptomic data from multiple somatic and reproductive tissues of male and female guppies, a species which exhibits extensive phenotypic sexual dimorphism. Our analysis of gene expression at single-cell resolution demonstrates that non-isometric scaling between the cell populations within each tissue and heterogeneity in cell type abundance between the sexes can influence inferred patterns of sex-biased gene expression by increasing both the false-positive and false-negative rates. Moreover, we show that at the bulk level, the subset of sex-biased genes that are the product of sex differences in cell type abundance can significantly confound patterns of coding-sequence evolution. Taken together, our results offer a unique insight into the evolution of sex-biased gene expression and highlight the power of single-cell RNA-sequencing in disentangling between genes that are a cause as opposed to a consequence of sexual dimorphism.
How do managerial ties affect contractual governance in interfirm cooperation?
Authors: Wang Li , Wang Longwei , Zhang Min 
Published: November 2022

Purpose
Based on social capital theory and the institutional theory, this paper aims to explain how a firm’s business ties and political ties affect contractual governance in an interfirm cooperation, and under which institutional conditions they can play a better role.

Design/methodology/approach
This study tests conceptual model using questionnaire survey data collected from 227 firms in China. Hierarchical regression analysis is used to test the hypotheses.

Findings
This study finds that business ties have significant effect on contract completeness, while political ties have significant effect on contract enforcement. Moreover, these effects are contingent on some institutional factors. Market information transparency strengthens the effect of business ties on contract completeness and weakens the effect of political ties on contract completeness. Legal system completeness weakens the effect of political ties on contract enforcement.

Practical implications
This study suggests that managers could actively and selectively use their managerial ties to enhance contractual governance in an interfirm cooperation.

Originality/value
This study adds to the current understanding of how an interfirm cooperation is shaped by the firm’s social capital derived from external network relationships and extends the research on what social antecedents affect contractual governance. Moreover, this study sheds new light on when managerial ties can play a more beneficial role in emerging economies.
“Local cooperation has been the cornerstone”: facilitators and barriers to resilience in a decentralized health system during COVID-19 in Finland
Authors: Kihlström Laura , Huhtakangas Moona , Karreinen Soila , Viita-aho Marjaana , Keskimäki Ilmo , Tynkkynen Liina-Kaisa 
Published: November 2022

PurposeThe purpose of this study was to elucidate facilitators and barriers to health system resilience and resilient responses at local and regional levels during the first year of the COVID-19 pandemic in Finland.Design/methodology/approachThe authors utilized a qualitative research approach and conducted semi-structured interviews (n = 32) with study participants representing five different regions in Finland. Study participants were recruited using purposive and snowball sampling. All study participants had been in management and civil servant positions during the first year of the pandemic, representing municipalities, municipalities' social and healthcare services, hospital districts and regional state administrative agencies. All interviews were completed remotely from April to December 2021 and the recordings transcribed verbatim. The authors coded the transcripts in ATLAS.ti 9.1 using directed content analysis.FindingsThe findings highlighted a wide range of localized responses to the pandemic in Finland. Facilitators to health system resilience included active networks of cooperation, crisis anticipation, transitioning into crisis leadership mode, learning how to incorporate new modes of operation, as well as relying on the competencies and motivation of health workforce. The authors found several barriers to health system resilience, including fragmented organization and management particularly in settings where integrated health care systems were not in place, insufficient preparedness to a prolonged crisis, lack of reliable information regarding COVID-19, not having plans in place for crisis communication, pandemic fatigue, and outflux of health workforce to other positions with better compensation and working conditions.Originality/valueFactors affecting health system resilience are often studied at the aggregate level of a nation. This study offers insights into what resilient responses look like from the perspective of local and regional actors in a decentralized health system. The results highlight that local capacities and context matter greatly for resilience. The authors call for more nuanced analyses on health systems and health system resilience at the sub-national level.
Critical challenges of integrating OPEX strategies with I4.0 technologies in manufacturing SMEs: a few pieces of evidence from developing economies
Authors: Joshi Sudhanshu , Sharma Manu , Bartwal Shalini , Joshi Tanuja , Prasad Mukesh 
Published: November 2022

PurposeThe study proposes to determine the impending challenges to lean integration with Industry 4.0 (I4.0) in manufacturing that aims at achieving desired operational performance. Integrating lean and Industry 4.0 as the two industrial approaches is synergetic in providing operational benefits such as increasing flexibility, improving productivity, reducing cost, reducing delivery time, improving quality and value stream mapping (VSM). There is an urgent need to understand the integrated potential of OPEX strategies like lean manufacturing and also to determine the challenges for manufacturing SMEs and further suggest a strategic roadmap for the future.Design/methodology/approachThe current work has used a combined approach on interpretative structural modeling (ISM) and fuzzy Matrice d'impacts croisés multiplication appliquée á un classment (MICMAC) approach to structure the multiple level analysis for the implementation challenges to integrate OPEX strategies with Industry 4.0.FindingsThe research has found that the indulgence of various implementation issues like lack of standardization, lack of vision and lack of trained support, all are the major challenges that inhibit the integration of OPEX strategies with I4.0 technologies in manufacturing.Research limitations/implicationsThe research has investigated the internal factors acting as a roadblock to lean and Industry 4.0 adoption. Further studies may consider external factors to lean and Industry 4.0 implementation. Also, further research may consider other operational excellence approaches and extend further to relevant sectors.Practical implicationsThis study provides the analysis of barriers that is useful for the managers to take strategic actions for implementing OPEX strategies with I4.0 in smart manufacturing.Originality/valueThe research determines the adoption challenges towards the integrated framework. This is the first study to explore challenges in integrating OPEX strategies with I4.0 technologies in manufacturing SMEs.
Statistical comparisons of 0.08 g/100 ml fortified blood alcohol samples from 6‐ml and 10‐ml gray‐top tubes
Authors: Olds Maria L. 
Published: November 2022

AbstractThis experiment supplements the study, “Statistical comparisons of blood alcohol samples from 6‐ml and 10‐ml grey‐top tubes”. The initial study analyzed fortified samples for blood alcohol concentration (BAC) using two sizes of gray‐top tubes: a 10‐ml tube containing a nominal 1% sodium fluoride (NaF), a preservative, and a 6‐ml tube containing 0.25% NaF, using the variables of time, storage temperature, fill volume, and concentration. From that study, paired t‐tests determined no difference in BAC from data sets of the two tube sizes, however, Analysis of Variance, or ANOVA, testing determined the two tube sizes yielded different results at 0.08 g/100 ml. To investigate this potential disparity, this study fortified new samples at 0.08 g/100 and focused on two variables: fill volume and storage duration, while increasing the sample population (to n = 8). For this study, the two tube types yielded equivalent concentrations under the majority of conditions studied. Differences between the two tube types were found using paired t‐test for the high‐volume samples on Days 7 and 30; ANOVA yielded the same results but also determined one additional statistical difference for the Day 30 low‐volume samples. However, the differences observed between tube sizes fall within standard deviation ranges established for the analytical method precision profile, indicating statistical differences are not analytically significant. Further studies are needed to investigate the comparability of the tubes under real‐world conditions, under which oxygen and/or additives are not added during sample preparation steps or by usage of blood bank products.
Crimp: An efficient tool for summarizing multiple clusterings in population structure analysis and beyond
Authors: Lautenschlager Ulrich 
Published: November 2022

AbstractWhen a data set is repeatedly clustered using unsupervised techniques, the resulting clusterings, even if highly similar, may list their clusters in different orders. This so‐called ‘label‐switching’ phenomenon obscures meaningful differences between clusterings, complicating their comparison and summary. The problem often arises in the context of population structure analysis based on multilocus genotype data. In this field, a variety of popular tools apply model‐based clustering, assigning individuals to a prespecified number of ancestral populations. Since such methods often involve stochastic components, it is a common practice to perform multiple replicate analyses based on the same input data and parameter settings. Available postprocessing tools allow to mitigate label switching, but leave room for improvements, in particular, regarding large input data sets. In this work, I present Crimp, a lightweight command‐line tool, which offers a relatively fast and scalable heuristic to align clusters across replicate clusterings consisting of the same number of clusters. For small problem sizes, an exact algorithm can be used as an alternative. Additional features include row‐specific weights, input and output files similar to those of CLUMPP (Jakobsson & Rosenberg, 2007) and the evaluation of a given solution in terms of CLUMPP as well as its own objective functions. Benchmark analyses show that Crimp, especially when applied to larger data sets, tends to outperform alternative tools considering runtime requirements and various quality measures. While primarily targeting population structure analysis, Crimp can be used as a generic tool to correct multiple clusterings for label switching. This facilitates their comparison and allows to generate an averaged clustering. Crimp's computational efficiency makes it even applicable to relatively large data sets while offering competitive solution quality.
Molecular identification and phylogeography of Gonipterus spp. (Coleoptera: Curculionidae) in Brazil
Authors: Nanini Frederico , Rossetti Victoria Z. , Soliman Everton P. , Zauza Edival A. V. , Benatti Thiago R. , Correa Alberto S. 
Published: November 2022

AbstractThe identification of the Gonipterus scutellatus complex species, known as the eucalyptus snout beetle, remained confusing for several years worldwide. Currently, the species Gonipterus platensis and Gonipterus pulverulentus are cited as present in Brazil. However, precise Gonipterus species identification, geographic distribution and economic importance in Brazil are unknown. Thus, our objectives were (i) to confirm the identification of Gonipterus species from different localities in Brazil using the sequencing of COI gene fragment, (ii) design a specific multiplex PCR marker for rapid molecular identification of Gonipterus species present in Brazil and (iii) apply a phylogeographic approach to assess the genetic diversity, demographic parameters and genetic structure of G. platensis population in Brazil. We confirmed the presence of G. platensis and G. pulverulentus in Brazilian territory. The species show different distribution, where G. platensis is widely distributed and G. pulverulentus is restricted to the south region. Gonipterus platensis populations are in spatial expansion, probably associated with the growth of Eucalyptus‐cultivated areas in Brazilian territory. Significant regional genetic population structure reinforces that the long dispersion processes of G. platensis within Brazilian territory is mediated by human activities. Thus, quarantine practices must be maintained and implemented to prevent new domestic and international introductions of Gonipterus specimens in Eucalyptus fields in Brazil.
Aridity and chronic anthropogenic disturbance as organizing forces of fruit‐feeding butterfly assemblages in a Caatinga dry forest
Authors: Melo Douglas H. A. , Freitas André V. L. , Tabarelli Marcelo , Filgueiras Bruno K. C. , Leal Inara R. 
Published: November 2022

AbstractAnthropogenic disturbances and climate change are expected to reorganize biodiversity on multiple ecological levels from populations to ecosystems, especially in arid and semiarid regions due to environmental filtering imposed by water stress. This paper examines the individual and combined effects of chronic anthropogenic disturbance and increased aridity on the structure of fruit‐feeding butterfly assemblages in a human‐modified landscape of Caatinga dry forest, in the northeast of Brazil. Butterflies were recorded monthly across old‐growth forest stands and their assemblages were described in terms of taxonomic and functional community‐level attributes confronted to different levels of chronic disturbance and aridity. Butterfly assemblages were species‐poor but had high species replacement (turnover) along both the chronic disturbance and aridity gradients. We observed a negative effect of aridity on alpha and beta diversity of butterfly assemblages. Butterfly assemblages across forest stands exposed to high levels of chronic disturbance and aridity had a nested structure. Functional diversity (Rao's Q) and the community‐weighted means (CWM) of ocellus‐bearing species and monocot‐feeding larvae were negatively and positively affected by increased aridity and chronic disturbance, respectively. Our findings suggest that aridity and its combination with chronic disturbance have a drastic effect on the structure of butterfly assemblages in the Caatinga dry forest. These findings highlight that rainfall and chronic disturbances as major drivers of biological reorganization in human‐modified landscapes. As aridity increases, Caatinga tends to support taxonomically and functionally impoverished and highly distorted assemblages.Abstract in Portuguese is available with online material
A resilience enhancing trauma‐informed program for children and mothers in domestic violence shelters: A qualitative study
Authors: van der Hoeven Mara L. , Widdershoven Guy A. M. , van Duin Esther M. , Hein Irma M. , Lindauer Ramón J. L. 
Published: November 2022

AbstractIn domestic violence (DV) shelters, offering psychosocial support services to mothers and children is vital. The program ‘Time for Tony the Turtle’ has been developed for mothers and children residing in DV shelters in the Netherlands. It aims to foster attachment and regulation skills, which can also prepare for trauma treatment if sought after later on. This qualitative study explores the experiences of mothers, children and professionals with the program and its perceived impact and what components function as facilitators and barriers in the implementation of such a program in DV crisis shelters in the Netherlands. We conducted in‐depth interviews with 15 mothers, 11 children and 18 professionals from three organizations offering DV shelters. We used thematic analysis to identify patterns of meaning in the interviews. Mothers, children and professionals valued that the program provided a calm moment for reflection in hectic times and that the playfulness in which the program addressed trauma‐related topics. However, mothers find it difficult to attend the program in the beginning of their shelter stay, therefore hampering the applicability of the program. Our findings suggest that integrating the topic of discussing father in a program in crisis shelters is complex and deserves more attention.
Population response to connectivity restoration of high elevation tropical stream reaches in Hawai'i
Authors: Strauch Ayron M. , Tingley Ralph W. , Hsiao Janet , Foulk Patra B. , Frauendorf Therese C. , MacKenzie Richard A. , Infante Dana M. 
Published: November 2022

AbstractTropical island streams are heavily impacted by water withdrawals to the detriment of native ecosystems. Freshwater fauna in the tropics often exhibit diadromous life‐history strategies, requiring hydrologic connectivity between upstream and nearshore habitats. During some or most of the year, this connectivity is generally lost at points of water withdrawal, typically constructed as a low‐head dam diversion. In 2010, instream flow standards (i.e., minimum environmental flows) were established for streams in East Maui, Hawai'i, which led to the partial restoration of flow in certain streams. In 2016, flow in several of these streams was then fully restored. We surveyed 10 streams before (2012) and after (2017) varying degrees of flow restoration (none, partial, full) to explore the short‐term consequences of reestablishing natural streamflow for the migratory fauna of high‐elevation tropical streams. Using visual point‐quadrat surveys, we quantified density and habitat usage of the endemic atyid shrimp (Atyoida bisulcata) and sampled A. bisulcata populations using seine‐netting to assess size frequency, sex ratio, percent ovigerous (egg bearing) females, and percent juveniles. In streams with full flow restoration, shrimp density increased in 2017 compared to 2012, while mean body size declined, suggesting increased recruitment following restoration. By contrast, streams that did not experience any flow restoration had similar shrimp densities and body sizes across years. Further, the male: female ratio declined from 18:1 in 2012 to 6.5:1 in 2017, suggesting an increase in reproductive potential of the population. Our results demonstrate that freshwater ecosystems upstream of diversion structures may respond rapidly to the restoration of hydrologic connectivity via increased recruitment of amphidromous species.