bluuebunny/crossref_metadata_2025_split huggingface dataset:
Using singleton densities to detect recent selection inBos taurus
Authors: Hartfield Matthew , Poulsen Nina Aagaard , Guldbrandtsen Bernt , Bataillon Thomas 
Published: May 2020

AbstractMany quantitative traits are subject to polygenic selection, where several genomic regions undergo small, simultaneous changes in allele frequency that collectively alter a phenotype. The widespread availability of genome data, along with novel statistical techniques, has made it easier to detect these changes. We apply one such method, the ‘Singleton Density Score’, to the Holstein breed ofBos taurusto detect recent selection (arising up to around 740 years ago). We identify several genes as candidates for targets of recent selection, including some relating to cell regulation, catabolic processes, neural-cell adhesion and immunity. We do not find strong evidence that three traits that are important to humans – milk protein content, milk fat content, and stature – have been subject to directional selection. Simulations demonstrate that sinceB. taurusrecently experienced a population bottleneck, singletons are depleted so the power of SDS methods are reduced. These results inform on which genes underlie recent genetic change inB. taurus, while providing information on how polygenic selection can be best investigated in future studies.Impact statementMany traits of ecological or economic importance (including height, disease propensity, climatic adaptation) are ‘polygenic’. That is, they are affected by a large number of genetic variants, with each one only making a small contribution to a trait, but collectively influence variation. As selection acts on all of these variants simultaneously, it only changes the frequency of each one by a small amount, making it hard to detect such selection from genome data. This situation has changed in recent years, with the proliferation of whole–genome data from many individuals, along with the development of methods to detect the subtle effects of polygenic selection. Here, we use data from 102 genomes from domesticated cattle (Bos taurus) that has experienced intense artificial selection since domestication, and test whether we can detect signatures of recent selection (arising up to 740 years ago). Domesticated species are appealing for this kind of study, as they are subject to extensive genome sequencing studies, and genetic variants can be related to traits under selection. We carried out our analysis in two parts. We first performed a genome–wide scan to find individual genetic regions that show signatures of recent selection. We identify some relating to cell regulation, catabolic processes, neural-cell adhesion and immunity. In the second part, we then analysed genetic regions associated with three key traits: milk protein content, milk fat content, and stature. We tested whether these regions collectively showed a signature of selection, but did not find a significant result in either case. Simulations suggest that the domestication history of cattle affected the power of these methods. We end with a discussion on how to best detect polygenic selection in future studies.
A colorimetric comparison of sunless with natural skin tan
Authors: Amano Kinjiro , Xiao Kaida , Wuerger Sophie , Meyer Georg 
Published: May 2020

AbstractThe main ingredient of sunless tanning products is dihydroxyacetone (DHA). DHA reacts with the protein and amino acid composition in the surface layers of the skin, producing melanoidins, which changes the skin colour, imitating natural skin tan caused by melanin. The purpose of this study was to characterise DHA-induced skin colour changes and to test whether we can predict the outcome of DHA application on skin tone changes.To assess the DHA-induced skin colour shift quantitatively, colorimetric and spectral measurements of the inner forearm were obtained before, four hours and 24 hours after application of a 7.5% concentration DHA gel in the experimental group (n= 100). In a control group (n= 60), the same measurements were obtained on both the inner forearm (infrequently sun-exposed) and the outer forearm (frequently sun-exposed); the difference between these two areas was defined as the naturally occurring tan. Skin colour shifts caused by DHA tanning and by natural tanning were compared in terms of lightness (L*), redness (a*) and yellowness (b*) in the standard CIELAB colour space. Naturalness of the DHA-induced skin tan was evaluated by comparing the trajectory of the chromaticity distribution in (L*,b*) space with that of naturally occurring tan. Twenty-four hours after DHA application, approximately 20% of the skin colour samples became excessively yellow, with chromaticities outside the natural range in (L*,b*) space. A principal component analysis was used to characterise the tanning pathway. Skin colour shifts induced by DHA were predicted by a multiple regression on the chromaticities and the skin properties. The model explained up to 49% of variance in colorimetric components with a median error of less than 2 ΔE. We conclude that the control of both the magnitude and the direction of the colour shift is a critical factor to achieve a natural appearance.
Once delayed non-invasive remote ischemic preconditioning protects against early stroke by modulating neuroinflammatory responses in rats
Authors: Du Xiangnan , Yang Jian , Zhao Yanlong , Wang Xuemei , Geng Xiaokun 
Published: May 2020

AbstractOnce delayed non-invasive remote ischemic preconditioning (RIPC) has been proven to provide endogenous protection against injury induced by ischemia–reperfusion in the central nervous system. However, for thus ischemic preconditioning method, it is still unclear how long this protection can maintain and what the underlying mechanism is. In this study, we tested the hypothesis that once delayed non-invasive RIPC protects brain injury at short reperfusion time. The rat was stimulated by transient middle cerebral artery occlusion (MCAo) for 90 min, and subsequent reperfusion was performed at 6 h, 72 h and 7 days after MCAo. RIPC was conducted in both hind limbs 24 h before MCAo for 3 cycles (10 min ischemia/ 10 min reperfusion). The infarct size was measured by 2, 3, 5-triphenyl-2H-tetrazolium chloride (TTC) staining and Cresyl violet (CV) staining. The mRNA and protein levels of inflammatory cytokines in the brain were measured by real-time RT-PCR and ELISA. The results showed that once delayed non-invasive RIPC reduced the infarct size, improved neurological functions and behavioral performance at 6 and 72 h post-stroke. There was no change by reperfusion at 7 d after MCAo. RIPC reduced the levels of TNFα, IL-1β and IL-6 in the brain at 72 h post stroke. It also reduced the levels of TNFα and IL-1β when reperfusion at 6 h after MCAo. Our results strongly supported that once delayed non-invasive RIPC protects against stroke as a non-invasive neuroprotective strategy, which maintained for both short and middle term ischemic reperfusion time. The protective effect is mediated by the modulation of inflammatory response in the ischemic brain.
Dermomyotome-derived endothelial cells migrate to the dorsal aorta to support hematopoietic stem cell emergence
Authors: Sahai-Hernandez Pankaj , Pouget Claire , Svoboda Ondřej , Traver David 
Published: May 2020

AbstractDevelopment of the dorsal aorta is a key step in the establishment of the adult blood-forming system, since hematopoietic stem and progenitor cells (HSPCs) arise from ventral aortic endothelium in all vertebrate animals studied. Work in zebrafish has demonstrated that arterial and venous endothelial precursors arise from distinct subsets of lateral plate mesoderm. Earlier studies in the chick showed that paraxial mesoderm generates another subset of endothelial cells that incorporate into the dorsal aorta to replace HSPCs as they exit the aorta and enter circulation. Here we show that a similar process occurs in the zebrafish, where a population of endothelial precursors delaminates from the somitic dermomyotome to incorporate exclusively into the developing dorsal aorta. Whereas somite-derived endothelial cells (SDECs) lack hematopoietic potential, they act as local niche to support the emergence of HSPCs from neighboring hemogenic endothelium. Thus, at least three subsets of endothelial cells (ECs) contribute to the developing dorsal aorta: vascular ECs, hemogenic ECs, and SDECs. Taken together, our findings indicate that the distinct spatial origins of endothelial precursors dictate different cellular potentials within the developing dorsal aorta.
Delayed effect of drought on the xylem vulnerability to cavitation inFagus sylvaticaL
Authors: Herbette Stephane , Charrier Olivia , cochard Hervé , Barigah Têté Severien 
Published: May 2020

AbstractKnowledge on variations of drought resistance traits is needed to predict the potential of trees to adapt to severe drought events expected to be more intense and frequent. Xylem vulnerability to cavitation is among the most important traits related to drought-induced mortality and exhibits a large variability between species. Acclimation of this trait to environmental conditions implies changes in the xylem structure and organization, leading previous studies to investigate its variations under conditions preserving growth. In European beech saplings, we assessed the effect of droughts of on the vulnerability to cavitation in branches that develop during recovery. The newly formed branches displayed lower vulnerability to cavitation in the plants that underwent the severest droughts leading to native embolism; the pressure that induces 50% loss of conductance being of −3.98 MPa in severely droughted plants whereas it was of −3.1 MPa in control plants, respectively. Although unexpected, these results argue for an acclimation, and not a weakening, of this trait to drought events.Key messagesevere water stress make the future developed shoots less vulnerable to xylem cavitation.
dms-view: Interactive visualization tool for deep mutational scanning data
Authors: Hilton Sarah K. , Huddleston John , Black Allison , North Khrystyna , Dingens Adam S. , Bedford Trevor , Bloom Jesse D. 
Published: May 2020

Summary and PurposeThe high-throughput technique of deep mutational scanning (DMS) has recently made it possible to experimentally measure the effects of all amino-acid mutations to a protein (Fowler and Fields 2014). Over the past five years, this technique has been used to study dozens of different proteins (Esposito et al. 2019) and answer a variety of research questions. For example, DMS has been used for protein engineering (Wrenbeck, Faber, and Whitehead 2017), understanding the human immune response to viruses (Lee et al. 2019), and interpreting human variation in a clinical setting (Starita et al. 2017; Gelman et al. 2019). Accompanying this proliferation of DMS studies has been the development of software tools (Bloom 2015; Rubin et al. 2017) and databases (Esposito et al. 2019) for data analysis and sharing. However, for many purposes it is important to also integrate and visualize the DMS data in the context of other information, such as the 3-D protein structure or natural sequence-variation data.Here we describedms-view(https://dms-view.github.io/), a flexible, web-based, interactive visualization tool for DMS data.dms-viewis written in JavaScript and D3, and links site-level and mutation-level DMS data to a 3-D protein structure. The user can interactively select sites of interest to examine the DMS measurements in the context of the protein structure.dms-viewtracks the input data and user selections in the URL, making it possible to save specific views of interactively generated visualizations to share with collaborators or to support a published study. Importantly,dms-viewtakes a flexible input data file so users can easily visualize their own DMS data in the context of protein structures of their choosing, and also incorporate additional information such amino-acid frequencies in natural alignments.
Tunisian National Innovation System futures: an actors’ analysis focus
Authors: Chaabouni Refaat , Bouzaiane Lotfi 
Published: May 2020

Purpose
This paper aims to focus on the Tunisian National Innovation System (NIS) and the conditions that might foster its aptitude to support socio-economic transformation.

Design/methodology/approach
The paper adopts an original twofold foresight methodology combining the analysis of key players with the exploration of scenarios. While usually, a foresight exercise considers only one of these two futures studies approaches.

Findings
The “Dynamic Islands System” scenario reflects the present situation and current trends. It shows that all expected components of an efficient system are in place, but they are evolving more or less independently. “Connected System” is the most desirable option because it reflects the potential to improve strongly productivity, competitiveness and social inclusion. The “Dislocated System” is a third possible but risky scenario. Despite the interesting insights provided through futures imaging, the scenario approach is not sufficient in providing indications of how and which actors can make happen the changes needed to move towards the desired state. So, a second step of the adopted twofold foresight approach addresses the role of key players. The analysis aims to reveal which actors are in a position to implement the required changes and thereby support the transition from the present to the desired scenario.

Practical implications
The challenges ahead are then pointed out, namely, that the private sector and firms would have to take the lead in the future; and that the less influential players would have to work side by side to be able to direct the NIS to the “Connected scenario”.

Originality/value
The clue in this approach is to transform a sub-optimal reality to achieve a desired end-state by understanding the trend scenario. The actors’ analysis helps to clarify the respective attitudes and concerns of the players vis-à-vis the required changes. In this two-step foresight approach, the desired scenario is considered as a specific project.
The physical internet as a new supply chain paradigm: a systematic literature review and a comprehensive framework
Authors: Treiblmaier Horst , Mirkovski Kristijan , Lowry Paul Benjamin , Zacharia Zach G. 
Published: May 2020

PurposeThe physical internet (PI) is an emerging logistics and supply chain management (SCM) concept that draws on different technologies and areas of research, such as the Internet of Things (IoT) and key performance indicators, with the purpose of revolutionizing existing logistics and SCM practices. The growing literature on the PI and its noteworthy potential to be a disruptive innovation in the logistics industry call for a systematic literature review (SLR), which we conducted that defines the current state of the literature and outlines future research directions and approaches.Design/methodology/approachThe SLR that was undertaken included journal publications, conference papers and proceedings, book excerpts, industry reports and white papers. We conducted descriptive, citation, thematic and methodological analyses to understand the evolution of PI literature.FindingsBased on the literature review and analyses, we proposed a comprehensive framework that structures the PI domain and outlines future directions for logistics and SCM researchers.Research limitations/implicationsOur research findings are limited by the relatively low number of journal publications, as the PI is a new field of inquiry that is composed primarily of conference papers and proceedings.Originality/valueThe proposed PI-based framework identifies seven PI themes, including the respective facilitators and barriers, which can inform researchers and practitioners on future potentially disruptive SC strategies.
Quality management for high-contact professional service firms: a multiple-case evidence from Indian law firms
Authors: Prashar Anupama 
Published: May 2020

PurposeThis paper presents an exploratory study to understand the distinctive quality dimensions of high-contact Professional Service Firms (PSFs) and develop a conceptual model for Quality Management (QM). The paper is based on empirical evidences from multiple cases in leading Indian law firms.Design/methodology/approachThe paper adopted an exploratory, multiple, embedded and comparative case study design. The empirical evidence from multiple case studies in 10 law firms (data includes 42 individual interviews, archival records, field notes) was used to explore the QM dimensions for PSFs.FindingsThe results showed that QM in PSFs is a multifaceted and continuous process rather than a straightforward and episodic one. The findings reveal three distinctive dimensions of QM for PSFs: managing the firm's image; managing the client-firm interaction and support processes and; managing the perceived value of service outcome. Further, the results showed a significant variation in the design of QM practices in a relatively homogenous group of PSFs (law firms). This reflected the influence of personnel and organizational characteristics on the QM.Research limitations/implicationsThe research is based on evidences collected from 10 Indian law firms and the research design is exploratory in nature. The future research is suggested in terms of extending the scope and research design.Practical implicationsThe insights obtained from the paper have implications for managers working on the design of service operations and particularly service quality in high-contact PSFs similar to law firms. While the study does not prescribe a standard design of QM systems for PSFs, it seeks to foster the thinking of managers by helping them conceptualize the broad quality-control checkpoints and quality attributes specific to PSF settingsOriginality/valueThe academic research in the management of professional service quality is dominated by conceptual/theoretical models for customer evaluation of service provider's performance and the issue of operationalization of QM in PSFs is still needs further investigation. This paper contributes to the theory of service operations management (SOM) by focusing on the structure of QM systems in PSFs.
Linking supervisor-support, person-job fit and person-organization fit to company value
Authors: Dhir Swati , Dutta Tanusree 
Published: May 2020

PurposeThe purpose of this study is to quantitatively examine the impact of perceived supervisor support, person-job fit (PJF) and person-organization fit (POF) on the company’s value through job satisfaction (JS).Design/methodology/approachData were collected from 220 respondents selected from different organizations in India using standard questionnaires. To estimate the hypothesized model fit indices, partial least square structural equation modeling were used.FindingsFindings suggest that there is a significant relationship among supervisor support, PJF and POF with JS and perceives company value.Research limitations/implicationsHuman resource (HR) professionals need to understand how they can help to increase the JS of employees before they decide on HR measures that would help improve the perceived contribution to company value.Originality/valueSupport from the superior induces a sense of value and worthiness to the employee, which, in turn, strengthens the relationship between the employees with his/her organization. Along with this PJF and POF are other significant factors for employee satisfaction. If the person likes the job or in other words if the prescribed job is suitable for the person, then the employee feels significant, which amplifies JS. The same is applicable for the POF. Consequently, the perceived contribution to company value increases.
Returns and volume
Authors: Fousekis Panos 
Published: May 2020

PurposeThe relationship between returns and trading volume is central in financial economics because it has both a theoretical interest and important practical implications with regard to the structure of financial markets and the level of speculation activity. The aim of this study is to provide new insights into the association between returns and trading volume by investigating their kernel (instantaneous) causality. The empirical analysis relies on time series data from 22 commodities futures markets (agricultural, energy and metals) in the USA.Design/methodology/approachNon-parametric (local linear) regressions are applied to daily data on returns and on trading activity; generalized correlation measures are computed and their differences are subjected to formal statistical testing.FindingsThe results suggest that raw returns are likely to kernel-cause volume and volume is likely to kernel-cause price volatility. The patterns of causal order are generally in line with what is stipulated by the relevant theory, they provide guidance for model specification and they appear to explain the empirical evidence on temporal (lag-lead) causality between the same pairs of variables obtained in earlier works.Originality/valueThe concept of kernel causality has very recently become a part of the toolkit for econometric/statistical analysis. To the best of the author’s knowledge, this is the first study that relies on the notion of kernel (instantaneous) causality to provide new evidence on a relationship that is of keen interest to investors, professional economists and policymakers.
An empirical longitudinal study of adoption of lean management in India
Authors: Rajagopalan Jayaraman 
Published: May 2020

PurposeTo identify the factors that need to be addressed by Indian industry to steeply ramp up its production and productivity in the coming years, so as to achieve the goal of the country becoming a 5 trillion dollar economy by 2025.Design/methodology/approachLean Management Leaders in Indian Industry (LMLII), i.e. those companies in India who are well known for having adopted TQM, BE and Lean methods for many years, and achieved success in their business) in Indian industry were selected and surveys were done between 2013 and 2017, to assess the status of LM adoption, by using the LESAT (version 2.0) survey tool. A longitudinal empirical study has been done, over a period of five years, so that the identification of factors is based on a few years’ data rather than a one year, spot-check or snapshot view. A new method, titled the ‘Three Step Reverse Exploratory Factor Analysis Procedure (TSREP)’, has been attempted to identify the ‘root causes’.FindingsLMLII's have improved in their adoption of LM over these years by about 10%. The root causes that can help in further advancement in adoption have been identified and classified under six component factors.Research limitations/implicationsThe identification of LMLII's has been done based on the experience and views of experts in TQM/ BE/ Lean in India. Since this is a first of such study (viz., the term LMLII is being defined and used for the first time), this methodology has been adopted. However, in future, a systematic way to assess the criteria for LMLII's could be designed. Secondly, the sample size of LMLII's needs to be fully representative of the industry.Practical implicationsBy using the results of this study, Indian companies can accelerate their LM adoption programmes, leading to quantum jumps in production and productivity, so as to achieve the 5 trillion USD economy by 2025. The practical implications are immense.Social implicationsSince LM is a bundle of Lean, TQM and BE, companies adopting LM will, due to the inclusion of waste reduction through 5S, JIT, kaizens and continuous improvement, address the Triple Bottom Line (TBL) protocol of the UN. TBL has comprehensive implications on society and environment, climate change and sustainability of business.Originality/valueThis work is original, at least in three ways. First, in the use of the concept of ‘LML’. Second, there is no previous longitudinal study done on Indian industry in LM. Third, the TSREP is being used for the first time. The value of this research is in its findings, in the identification of key factors for future growth and the use of a novel technique for improving upon the accuracy, analytical rigour and legitimacy of the results.