bluuebunny/crossref_metadata_2025_split huggingface dataset:
Eulerian spectrum of finite-time Lyapunov exponents in compound channels
Authors: Enrile Francesco , Besio Giovanni , Stocchino Alessandro 
Published: July 2020

AbstractFluid flows reveal a wealth of structures, such as vortices and barriers to transport. Usually, either an Eulerian or a Lagrangian frame of reference is employed in order to detect such features of the flow. However, the two frameworks detect structures that have different properties. Indeed, common Eulerian diagnostics (Hua-Klein and Okubo-Weiss criterion) employed in order to detect vortices do not always agree with Lagrangian diagnostics such as finite-time Lyapunov exponents. Besides, the former are Galilean-invariant whereas the latter is objective. However, both the Lagrangian and the Eulerian approaches to coherent structure detection must show some links under any inertial-frame. Compound channels flows have been accurately studied in the past, both from a Lagrangian and an Eulerian point of view. The features detected do not superimpose: Eulerian vortices do not coincide with barriers to transport. The missing link between the two approaches is here recovered thanks to a spectral analysis.
Stabilization of uni-directional water wave trains over an uneven bottom
Authors: Armaroli Andrea , Gomel Alexis , Chabchoub Amin , Brunetti Maura , Kasparian Jérôme 
Published: July 2020

AbstractWe study the evolution of nonlinear surface gravity water wave packets developing from modulational instability over an uneven bottom. A nonlinear Schrödinger equation (NLSE) with coefficients varying in space along propagation is used as a reference model. Based on a low-dimensional approximation obtained by considering only three complex harmonic modes, we discuss how to stabilize a one-dimensional pattern in the form of train of large peaks sitting on a background and propagating over a significant distance. Our approach is based on a gradual depth variation, while its conceptual framework is the theory of autoresonance in nonlinear systems and leads to a quasi-frozen state. Three main stages are identified: amplification from small sideband amplitudes, separatrix crossing and adiabatic conversion to orbits oscillating around an elliptic fixed point. Analytical estimates on the three stages are obtained from the low-dimensional approximation and validated by NLSE simulations. Our result will contribute to understand the dynamical stabilization of nonlinear wave packets and the persistence of large undulatory events in hydrodynamics and other nonlinear dispersive media.
Genome-wide association analysis reveals new insights into the genetic architecture of defensive, agro-morphological and quality-related traits in cassava
Authors: Rabbi Ismail Yusuf , Kayondo Siraj Ismail , Bauchet Guillaume , Yusuf Muyideen , Aghogho Cynthia Idhigu , Ogunpaimo Kayode , Uwugiaren Ruth , Smith Ikpan Andrew , Peteti Prasad , Agbona Afolabi , Parkes Elizabeth , Lydia Ezenwaka , Wolfe Marnin , Jannink Jean-Luc , Egesi Chiedozie , Kulakow Peter 
Published: July 2020

AbstractKey messageMore than 40 QTLs associated with 14 stress-related, quality and agro-morphological traits were identified. A catalogue of favourable SNP markers for MAS and a list of candidate genes are provided.AbstractCassava (Manihot esculenta) is one of the most important starchy root crops in the tropics due to its adaptation to marginal environments. Genetic progress in this clonally propagated crop can be accelerated through the discovery of markers and candidate genes that could be used in cassava breeding programs. We carried out a genome-wide association study (GWAS) using a panel of 5130 clones developed at the International Institute of Tropical Agriculture—Nigeria. The population was genotyped at more than 100,000 SNP markers via genotyping-by-sequencing (GBS). Genomic regions underlying genetic variation for 14 traits classified broadly into four categories: biotic stress (cassava mosaic disease and cassava green mite severity); quality (dry matter content and carotenoid content) and plant agronomy (harvest index and plant type) were investigated. We also included several agro-morphological traits related to leaves, stems and roots with high heritability. In total, 41 significant associations were uncovered. While some of the identified loci matched with those previously reported, we present additional association signals for the traits. We provide a catalogue of favourable alleles at the most significant SNP for each trait-locus combination and candidate genes occurring within the GWAS hits. These resources provide a foundation for the development of markers that could be used in cassava breeding programs and candidate genes for functional validation.
Simplified performance assessment methodology for addressing soil quality of nature-based solutions
Authors: Bouzouidja Ryad , Béchet Béatrice , Hanzlikova Jitka , Sněhota Michal , Le Guern Cécile , Capiaux Hervé , Jean-Soro Liliane , Claverie Rémy , Joimel Sophie , Schwartz Christophe , Guénon René , Szkordilisz Flora , Körmöndi Barnabas , Musy Marjorie , Cannavo Patrice , Lebeau Thierry 
Published: July 2020

Abstract
Purpose
In urban areas, soil functions are deeply impacted by all human activities, e.g., water infiltration, carbon storage, and chemical substances degradation potential. In this context, nature-based solutions (NBS) are assumed to deliver multiple environmental benefits for soil quality improvement. The H2020 Nature4Cities project (N4C) offers the framework to develop physical, chemical, and microbiological indicators to the performance assessment for addressing NBS soil quality (performance assessment of soil quality) to be included in a tool-box designed for architects or municipalities.

Materials and methods
A simplified performance assessment methodology was developed for addressing NBS soil quality. It is based on the comparison of physical, chemical, and biological characteristics to soil reference baseline. In this setting, we present here the results obtained from case studies selected in three European cities (Nantes (F), Nancy (F), Bustehrad (CR)) to test the methodology. The case studies correspond to three different NBSs: former market turned into gardening areas (FMG), green roofs (GR), and urban allotment gardens (UAG). The performance assessment was based on two criteria: (1) soil fertility and (2) soil contamination.

Results and discussion
The basic soil properties (e.g., pH, bulk density) and soil fertility (e.g., soil organic matter (SOM)) for the two open soil NBS (FMG and UAGs) are equivalent to cultivated soils. Those of GR are highly controlled by the type of natural materials used in the substrate. Concerning contamination, the soil quality of FMG was shown to be significantly impacted by former agricultural practices (pesticide residues, trace metals (TE)). Measured molecular biomass of FMG was compared with predictive molecular biomass (determined according to the soil physicochemical properties). Data showed that 12 of the 14 measured plots are classified as altered or very altered soils with regard to this parameter. TE in UAGs soils exhibit various concentrations, depending on former land use, cultural practices, and geological contexts.

Conclusions
In conclusion, the study showed that soil fertility is a rather interesting tool in the evaluation of urban soil quality. Nevertheless, basic soil properties seem to be influenced by the effects of trace element and pesticide contamination. The presence of NBSs seems to have a favorable impact (e.g., filtration of pollutants). Inappropriate management of urban soils can lead to a decrease in soil quality and thus influence the current major issues (e.g., carbon sequestration, contamination of urban spaces by organic, and inorganic pollutants).
Cross-network interaction for diagnosis of major depressive disorder based on resting state functional connectivity
Authors: Zhu Xueling , Yuan Fulai , Zhou Gaofeng , Nie Jilin , Wang Dongcui , Hu Ping , Ouyang Lirong , Kong Lingyu , Liao Weihua 
Published: July 2020

AbstractPrevious studies have suggested that resting-state functional connectivity plays a central role in the physiopathology of major depressive disorder (MDD). However, the individualized diagnosis of MDD based on resting-state functional connectivity is still unclear, especially in first episode drug-naive patients with MDD. Resting state functional magnetic resonance imaging was enrolled from 30 first episode drug-naive patients with MDD and age- and gender-matched 31 healthy controls. Whole brain functional connectivity was computed and viewed as classification features. Multivariate pattern analysis (MVPA) was performed to discriminate patients with MDD from controls. The experimental results exhibited a correct classification rate of 82.25% (p < 0.001) with sensitivity of 83.87% and specificity of 80.64%. Almost all of the consensus connections (125/128) were cross-network interaction among default mode network (DMN), salience network (SN), central executive network (CEN), visual cortex network (VN), Cerebellum and Other. Moreover, the supramarginal gyrus exhibited high discriminative power in classification. Our findings suggested cross-network interaction can be used as an effective biomarker for MDD clinical diagnosis, which may reveal the potential pathological mechanism for major depression. The current study further confirmed reliable application of MVPA in discriminating MDD patients from healthy controls.
What GDPR and the Health Research Regulations (HRRs) mean for Ireland: “explicit consent”—a legal analysis
Authors: Kirwan Mary , Mee Blanaid , Clarke Niamh , Tanaka Aoife , Manaloto Lino , Halpin Emma , Gibbons Una , Cullen Ann , McGarrigle Sarah , Connolly Elisabeth M. , Bennett Kathleen , Gaffney Eoin , Flanagan Ciaran , Tier Laura , Flavin Richard , McElvaney Noel G. 
Published: July 2020

Abstract
Background
Irish Health Research Regulations (HRRs) were introduced following the commencement of the General Data Protection Regulation (GDPR) in 2018. The HRRs set out supplementary regulatory requirements for research. A legal analysis presented under the auspices of the Irish Academy of Medical Sciences (IAMS) on April 8 and November 25, 2019 at the Royal College of Surgeons in Ireland welcomed the introduction of GDPR and the HRRs. The analysis found the GDPR “explicit consent” introduced by the HRRs is problematic. A call was made to regulate informed consent in line with the common law as an achievable alternative safeguard, bringing Ireland in line with other EU Member States.

Aims
This article aims to review academic papers, legal opinion, EU opinion and advice and data protection law in relation to research and explicit consent, in order to examine the legal burden of GDPR and the HRRs on health research in Ireland and to determine whether the analysis presented at the IAMS meetings is reflected more widely in legal text.

Methods
Legal literature review of academic papers, legal opinion, EU opinion and advice and data protection legislation.

Results
The legal literature review overwhelmingly supports the concerns raised.

Conclusions
Our results confirm the GDPR explicit consent requirement of the HRRs is having had a significantly negative and far-reaching impact on the conduct of health research in Ireland. Urgent review of the HRRs and meaningful engagement between the health research community and legislators in healthcare is required.
1H, 13C and 15N backbone resonance assignment of BRCA1 fragment 219–504
Authors: Górka Michał , Żerko Szymon , Konrat Robert , Koźmiński Wiktor , Kurzbach Dennis 
Published: July 2020

AbstractThe breast cancer susceptibility protein 1 (BRCA1) plays a central role in the suppression of human breast and ovarian cancer. Germ line mutations of the BRCA1 gene are responsible for the hereditary breast and ovarian cancer (HBOC) syndrome. Here were report 1H, 13C, and 15N resonance assignments for the intrinsically disordered BRCA1 fragment 219–504, which contains important interaction sites for the proto-oncogenic transcription factor MYC as well as for p53. A nuclear magnetic resonance assignment was achieved at 18.8 T magnetic field strength using a 5D HN(CA)CONH experiment and its associated 4D H(NCA)CONH and 4D (H)N(CA)CONH experiments. 13Cα and 13Cβ assignments were obtained using a 5D HabCabCONH experiment. With this strategy, 90% of 1H/15N backbone pairs could be assigned. Similarly, 264 C’ resonances were assigned corresponding to 86% of the total number of C’ atoms. In addition, 252 Cβ resonances (i.e. 85%) were assigned, together with 461 attached Hβ nuclei, as well as 264 (i.e. 86%) Cα resonances, together with 275 attached Hα nuclei.
Does Dual Training Make the World Go Round? Training Models in German Companies in China, India and Mexico
Authors: Pilz Matthias , Wiemann Kristina 
Published: July 2020

AbstractThe transfer of dual training from Germany to other countries is widely debated. However, there is little, if any, academic research in this area. The present study addresses this research deficit and examines the training activities of German companies in China, India and Mexico. Data was collected in 86 manufacturing companies of differing sizes and producing different goods. The evaluation of a total of 149 interviews with training experts showed that both the local training system and the German system can serve as a model for companies’ training. Hybrid forms combining local and German elements also exist. Even within a company, different parallel types of training can be identified. However, the orientation to local training practice is the dominant model in all three countries.
Current Approaches for the Non-surgical Management of Peri-implant Diseases
Authors: Roccuzzo Andrea , De Ry Siro Pietro , Sculean Anton , Roccuzzo Mario , Salvi Giovanni Edoardo 
Published: July 2020

Abstract
Purpose of the Review
Peri-implant diseases are inflammatory reactions to bacterial infections affecting osseointegrated dental implants. In recent years, scientific interest on this topic has increased, as demonstrated by the appearance of a large number of protocols for treating peri-implant mucositis (PIM) and peri-implantitis (PI). The aim of the present narrative review is to provide an overview of the recent (e.g., 2014–present) published protocols for the non-surgical treatment of peri-implant diseases.

Recent Findings
Several adjunctive measures for mechanical debridement have been proposed and investigated to achieve implant surface decontamination and resolution of mucosal inflammation. However, none of the adjunctive measures has been shown to significantly improve peri-implant conditions compared with non-surgical mechanical debridement alone.

Summary
Non-surgical approaches for the treatment of peri-implant diseases have been proved to be reliable in reducing clinical signs of peri-implant inflammation (e.g., BoP), although with limited capability to achieve complete disease resolution. Due to the limited benefits from the use of currently proposed adjunctive methods (e.g., chlorhexidine, lasers, photodynamic therapy, systemic probiotics) their application is not recommended until further investigations prove their clinical utility.
Frailty prevalence according to the Survey of Health, Ageing and Retirement in Europe-Frailty Instrument (SHARE-FI) definition, and its variables associated, in patients with symptomatic knee osteoarthritis: findings from a cross-sectional study
Authors: Salaffi Fausto , Di Carlo Marco , Carotti Marina , Farah Sonia , Giovagnoni Andrea 
Published: July 2020

Abstract
Background
Frailty is a frequent condition in patients with knee osteoarthritis (KOA). However, there are different constructs on how to define it. Survey of Health, Ageing and Retirement in Europe-Frailty Instrument (SHARE-FI) is one of them.

Aim
To assess the prevalence of frailty, according to the SHARE-FI definition in patients with symptomatic KOA, and to establish its associated factors.

Methods
Symptomatic KOA patients were evaluated for pain symptoms, quality of life, comorbidities, ongoing drug therapy, and radiological damage. Patients were categorised according to the SHARE-FI definition into frail, pre-frail, and non-frail, and compared to a group of healthy controls associated by age and gender.

Results
170 symptomatic KOA patients (76.5% female, mean age 70.1 years) and 186 healthy controls were included. According to SHARE-FI criteria, 35 patients (20.6%) were categorised frail, 50 (29.4%) pre-frail, and 85 (50%) non-frail. The prevalence of frail or pre-frail subjects was statistically significantly higher in patients with symptomatic KOA. Stratifying the patients according to the frailty categories, frail subjects showed significantly higher mean values of pain. The results from logistic regression analysis revealed that polypharmacy (p = 0.003), pain (p = 0.016) and comorbidities (p = 0.035) were the variables independently associated with frailty in symptomatic KOA.

Discussion
Frailty or pre-frailty, defined by SHARE-FI, is common in symptomatic KOA. The main factors associated with frailty were polypharmacy, pain and comorbidity burden.

Conclusions
SHARE-FI can represent an useful tool to define frailty in symptomatic KOA.
Conversion of fish processing wastewater into fish feed ingredients through submerged cultivation of Aspergillus oryzae
Authors: Sar Taner , Ferreira Jorge A. , Taherzadeh Mohammad J. 
Published: July 2020

Abstract
Fish processing towards production of fillet gives rise to wastewater streams that are ultimately directed to biogas production and/or wastewater treatment. However, these wastewater streams are rich in minerals, fat, and proteins that can be converted to protein-rich feed ingredients through submerged cultivation of edible filamentous fungi. In this study, the origin of wastewater stream, initial pH, cultivation time, and extent of washing during sieving, were found to influence the amount of recovered material from the wastewater streams and its protein content, following cultivation with Aspergillus oryzae. Through cultivation of the filamentous fungus in sludge, 330 kg of material per ton of COD were recovered by sieving, corresponding to 121 kg protein per ton of COD, while through its cultivation in salt brine, 210 kg of material were recovered per ton of COD, corresponding to 128 kg protein per ton of COD. Removal ranges of 12–43%, 39–92%, and 32–66% for COD, total solids, and nitrogen, respectively, were obtained after A. oryzae growth and harvesting in the wastewater streams. Therefore, the present study shows the versatility that the integration of fungal cultivation provides to fish processing industries, and should be complemented by economic, environmental, and feeding studies, in order to reveal the most promising valorization strategy.

Graphic abstract
Hope and Hopefulness
Authors: Kwong Jack M. C. 
Published: July 2020

AbstractThis paper proposes a new framework for thinking about hope, with certain unexpected consequences. Specifically, I argue that a shift in focus from locutions like “x hopes that” and “x is hoping that” to “x is hopeful that” and “x has hope that” can improve our understanding of hope. This approach, which emphasizes hopefulness as the central concept, turns out to be more revealing and fruitful in tackling some of the issues that philosophers have raised about hope, such as the question of how hope can be distinguished from despair or how people can have differing strengths in hope. It also allows us to see that many current accounts of hope, far from being rivals, are actually compatible with one another.
Methodology for studying human attitudes and behaviour to cow−calf contact systems
Authors: Ferneborg Sabine , Napolitano Fabio , Vaarst Mette , Mejdell Cecilie M. , Waiblinger Susanne , de Oliveira Daiana 
Published: July 2020

AbstractThis position paper describes a common stand on methodology of human attitudes and behaviour that is suitable to use in studies regarding cow−calf contact (CCC) in dairy production, in order to create a common knowledge base and foundation for future recommendations of CCC systems. We describe how different quantitative and qualitative methods can be used to study human attitudes to CCC as well as farmer or consumer behaviour. We aim to contribute to a better understanding of the available methods, and hope that this paper can be used as a guideline for future studies in this area.
Methodological terminology and definitions for research and discussion of cow-calf contact systems
Authors: Sirovnik Janja , Barth Kerstin , de Oliveira Daiana , Ferneborg Sabine , Haskell Marie J. , Hillmann Edna , Jensen Margit Bak , Mejdell Cecilie M. , Napolitano Fabio , Vaarst Mette , Verwer Cynthia M. , Waiblinger Susanne , Zipp Katharina A. , Johnsen Julie Føske 
Published: July 2020

AbstractDue to increasing public concern regarding separation of the dairy cow and calf within the first days after birth, alternative systems, where cows and calves stay in contact for an extended period, are receiving increasing interest from a broad array of researchers and other stakeholders. With more research in the area, there is a risk of inconsistencies emerging in the use of terminology. To create a better consensus in further discussions, the aim of this Research Reflection is to provide definitions and propose a common terminology for cow-calf contact in dairy production. We also suggest definitions for various systems allowing cow-calf contact and describe the distinct phases of cow-calf contact systems.
Morphometric analysis of the shell of the intertidal gastropod Echinolittorina lineolata (d'Orbigny, 1840) at different latitudes along the Brazilian coast
Authors: Matos Alisson Sousa , Matthews-Cascon Helena , Chaparro Oscar R. 
Published: July 2020

AbstractMorphometric analysis is one of the tools widely used to quantify, analyse and describe the variations in the biological forms of animals. In this study, we examined the linear morphometric variations of the shell of the small intertidal gastropod Echinolittorina lineolata and compared the patterns to identify variations among populations and between sexes. The individuals were collected from latitudes 3°S, 14°S, 21°S and 23°S along the Brazilian coast. Traditional morphometric analysis was performed, and the morphometric variables of the shells, namely, the length and width of the shell and the length and width of the shell opening were obtained. The observed size pattern was influenced by latitude, as well as by local spatial responses to factors such as the substrate changing the morphometric variables of the snail. Of the morphometric variables, the length and the width of the shell were the most representative variables that influenced the gastropods in the different latitudes. These variables were also different in males and females, with females having larger shell lengths and widths across all latitudes.
Component Detection and Evaluation Framework (CDEF): A Semantic Annotation Tool
Authors: Jessurun Nathan , Paradis Olivia , Roberts Alexandra , Asadizanjani Navid 
Published: July 2020

AbstractImage labeling is the process of manually assigning a class to subregions within an image for machine learning applications. When these subregions are complex shapes, this process is known as semantic segmentation. We propose a new software application, the Component Detection and Evaluation Framework (CDEF), for creating such semantic labels. The benefits of CDEF over existing tools are highlighted, and further improvements are proposed.