bluuebunny/crossref_metadata_2025_split huggingface dataset:
Modelling capsizing icebergs in the open ocean
Authors: Bonnet P , Yastrebov V A , Queutey P , Leroyer A , Mangeney A , Castelnau O , Sergeant A , Stutzmann E , Montagner J-P 
Published: July 2020

Summary
At near-grounded glacier termini, calving can lead to the capsize of kilometre-scale (i.e. gigatons) unstable icebergs. The transient contact force applied by the capsizing iceberg on the glacier front generates seismic waves that propagate over teleseismic distances. The inversion of this seismic signal is of great interest to get insight into actual and past capsize dynamics. However, the iceberg size, which is of interest for geophysical and climatic studies, cannot be recovered from the seismic amplitude alone. This is because the capsize is a complex process involving interactions between the iceberg, the glacier and the surrounding water. This paper presents a first step towards the construction of a complete model, and is focused on the capsize in the open ocean without glacier front nor ice-mélange. The capsize dynamics of an iceberg in the open ocean is captured by computational fluid dynamics (CFD) simulations, which allows assessing the complexity of the fluid motion around a capsizing iceberg and how far the ocean is affected by iceberg rotation. Expressing the results in terms of appropriate dimensionless variables, we show that laboratory scale and field scale capsizes can be directly compared. The capsize dynamics is found to be highly sensitive to the iceberg aspect ratio and to the water and ice densities. However, dealing at the same time with the fluid dynamics and the contact between the iceberg and the deformable glacier front requires highly complex coupling that often goes beyond actual capabilities of fluid-structure interaction softwares. Therefore, we developed a semi-analytical simplified fluid-structure model (SAFIM) that can be implemented in solid mechanics computations dealing with contact dynamics of deformable solids. This model accounts for hydrodynamic forces through calibrated drag and added-mass effects, and is calibrated against the reference CFD simulations. We show that SAFIM significantly improves the accuracy of the iceberg motion compared with existing simplified models. Various types of drag forces are discussed. The one that provides the best results is an integrated pressure-drag proportional to the square of the normal local velocity at the iceberg’s surface, with the drag coefficient depending linearly on the iceberg’s aspect ratio. A new formulation based on simplified added-masses or computed added-mass proposed in the literature, is also discussed. We study in particular the change of hydrodynamic-induced forces and moments acting on the capsizing iceberg. The error of the simulated horizontal force ranges between 5 and 25 per cent for different aspect ratios. The added-masses affect the initiation period of the capsize, the duration of the whole capsize being better simulated when added-masses are accounted for. The drag force mainly affects the amplitude of the fluid forces and this amplitude is best predicted without added-masses.
From research to international scale-up: stakeholder engagement essential in successful design, evaluation and implementation of paediatric HIV testing intervention
Authors: Mugo Cyrus , Njuguna Irene , Nduati Margaret , Omondi Vincent , Otieno Verlinda , Nyapara Florence , Mabele Elizabeth , Moraa Hellen , Sherr Kenneth , Inwani Irene , Maleche-Obimbo Elizabeth , Wamalwa Dalton , John-Stewart Grace , Slyker Jennifer , Wagner Anjuli D 
Published: July 2020

Abstract
Stakeholder engagement between researchers, policymakers and practitioners is critical for the successful translation of research into policy and practice. The Counseling and Testing for Children at Home (CATCH) study evaluated a paediatric index case testing model, targeting the children of HIV-infected adults in care in Kenya. Researchers collaborated with stakeholders in the planning, execution and evaluation, and dissemination phases of CATCH. They included a community advisory board, the national HIV programme, County health departments, institutional ethics review bodies, a paediatric bioethics group, facility heads and frontline healthcare workers . Stakeholder analysis considered the power and interest of each stakeholder in the study. All stakeholders had some power to influence the success of the project in the different phases. However, support from institutions with higher hierarchical power increased acceptance of the study by stakeholders lower in the hierarchy. During the planning, execution and evaluation, and dissemination phases, the study benefitted from deliberate stakeholder engagement. Through engagement, changes were made in the approach to recruitment to ensure high external validity, placing recruitment optimally within existing clinic flow patterns. Choices in staffing home visits were made to include the appropriate cadre of staff. Adaptations were made to the consenting process that balanced the child’s evolving autonomy and risks of HIV disclosure. Dissemination involved delivering site-specific results in each HIV clinic, local and international conferences and sharing of study tools, resulting in the study approach being scaled up nationally. The deliberate engagement of stakeholders early in intervention development optimized study validity and accelerated adoption of the CATCH approach in nationwide HIV testing campaigns by the Ministry of Health and inclusion of paediatric index-case testing in national HIV testing guidelines. Involving policymakers and frontline healthcare workers throughout the study cycle builds capacity in the implementing team for quick adoption and scale-up of the evidence-based practice.
Insights into genetic variants associated with NASH-fibrosis from metabolite profiling
Authors: Mann Jake P , Pietzner Maik , Wittemans Laura B , Rolfe Emmanuela De Lucia , Kerrison Nicola D , Imamura Fumiaki , Forouhi Nita G , Fauman Eric , Allison Michael E , Griffin Jules L , Koulman Albert , Wareham Nicholas J , Langenberg Claudia 
Published: July 2020

AbstractSeveral genetic discoveries robustly implicate five single-nucleotide variants in the progression of non-alcoholic fatty liver disease to non-alcoholic steatohepatitis and fibrosis (NASH-fibrosis), including a recently identified variant in MTARC1. To better understand these variants as potential therapeutic targets, we aimed to characterize their impact on metabolism using comprehensive metabolomics data from two population-based studies. A total of 9135 participants from the Fenland study and 9902 participants from the EPIC-Norfolk cohort were included in the study. We identified individuals with risk alleles associated with NASH-fibrosis: rs738409C&gt;G in PNPLA3, rs58542926C&gt;T in TM6SF2, rs641738C&gt;T near MBOAT7, rs72613567TA&gt;T in HSD17B13 and rs2642438A&gt;G in MTARC1. Circulating levels of 1449 metabolites were measured using targeted and untargeted metabolomics. Associations between NASH-fibrosis variants and metabolites were assessed using linear regression. The specificity of variant-metabolite associations were compared to metabolite associations with ultrasound-defined steatosis, gene variants linked to liver fat (in GCKR, PPP1R3B and LYPLAL1) and gene variants linked to cirrhosis (in HFE and SERPINA1). Each NASH-fibrosis variant demonstrated a specific metabolite profile with little overlap (8/97 metabolites) comprising diverse aspects of lipid metabolism. Risk alleles in PNPLA3 and HSD17B13 were both associated with higher 3-methylglutarylcarnitine and three variants were associated with lower lysophosphatidylcholine C14:0. The risk allele in MTARC1 was associated with higher levels of sphingomyelins. There was no overlap with metabolites that associated with HFE or SERPINA1 variants. Our results suggest a link between the NASH-protective variant in MTARC1 to the metabolism of sphingomyelins and identify distinct molecular patterns associated with each of the NASH-fibrosis variants under investigation.
High Levels of Psychological Resilience Associated With Less Disease Activity, Better Quality of Life, and Fewer Surgeries in Inflammatory Bowel Disease
Authors: Sehgal Priya , Ungaro Ryan C , Foltz Carol , Iacoviello Brian , Dubinsky Marla C , Keefer Laurie 
Published: July 2020

Abstract

Background
Stress and depression are risk factors for inflammatory bowel disease (IBD) exacerbations. It is unknown if resilience, or one’s ability to recover from adversity, impacts disease course. The aim of this study was to examine the association between resilience and IBD disease activity, quality of life (QoL), and IBD-related surgeries.

Methods
We performed a cross-sectional study of IBD patients at an academic center. Patients completed the Connor-Davidson Resilience Scale questionnaire, which measures resilience (high resilience score ≥ 35). The primary outcome was IBD disease activity, measured by Mayo score and Harvey-Bradshaw Index (HBI). The QoL and IBD-related surgeries were also assessed. Multivariate linear regression was conducted to assess the association of high resilience with disease activity and QoL.

Results
Our patient sample comprised 92 patients with ulcerative colitis (UC) and 137 patients with Crohn disease (CD). High resilience was noted in 27% of patients with UC and 21.5% of patients with CD. Among patients with UC, those with high resilience had a mean Mayo score of 1.54, and those with low resilience had a mean Mayo score of 4.31, P &lt; 0.001. Among patients with CD, those with high resilience had a mean HBI of 2.31, and those with low resilience had a mean HBI of 3.95, P = 0.035. In multivariable analysis, high resilience was independently associated with lower disease activity in both UC (P &lt; 0.001) and CD (P = 0.037) and with higher QoL (P = 0.016). High resilience was also associated with fewer surgeries (P = 0.001) among patients with CD.

Conclusions
High resilience was independently associated with lower disease activity and better QoL in patients with IBD and fewer IBD surgeries in patients with CD. These findings suggest that resilience may be a modifiable factor that can risk-stratify patients with IBD prone to poor outcomes.
A 20-year retrospective on the provision of fisheries subsidies in the European Union
Authors: Skerritt Daniel J , Arthur Robert , Ebrahim Naazia , Le Brenne Valérie , Le Manach Frédéric , Schuhbauer Anna , Villasante Sebastián , Sumaila U Rashid 
Published: July 2020

Abstract
The next few months will be crucial in determining whether the world’s major fishing nations will deliver on commitments under the Sustainable Development Goals (SDGs) of the United Nations to prohibit harmful fisheries subsidies. Timing is of heightened importance given that the EU—the second-largest subsidizer—is reforming its financial instrument for fisheries. This article therefore examines the last 20 years of subsidies provided to the fisheries sector by the EU and supports discussion of the potential future for EU fisheries subsidies and the chance of success for the SDGs. Significant changes have occurred to EU fisheries subsidies during this period. Partly these changes have occurred as a result of the removal of certain capacity-enhancing subsidies and partly due to additional funds being allocated to beneficial forms of public funding. However, progress is slow and a significant amount of capacity-enhancing subsidies remain. Furthermore, the true extent of any reduction in capacity-enhancing subsidies may be shrouded by the Pollyannaish classifications of subsidization, but most disconcerting are the recent positions adopted by both the European Parliament and Council of the EU, which aim to reintroduce some of the most harmful subsidies, thereby putting the progress needed to achieve sustainable fisheries at risk.
Modelling the spatial–temporal distributions and associated determining factors of a keystone pelagic fish
Authors: Andrews Samantha , Leroux Shawn J , Fortin Marie-Josée 
Published: July 2020

Abstract
Mobile pelagic species habitat is structured around dynamic oceanographic and ecological processes that operate and interact horizontally and vertically throughout the water column and change over time. Due to their extensive movements, pelagic species distributions are often poorly understood. We use the Maxent species distribution model to assess how changes in the relative importance of modelled oceanographic (e.g. temperature) and climatic variables (e.g. the North Atlantic Oscillation) over 17 years affect the monthly average horizontal and vertical distribution of a keystone pelagic forage species, Atlantic Canadian capelin (Mallotus villosus). We show that the range and distribution of capelin occurrence probabilities vary across horizontal and vertical axes over time, with binary presence/absence predictions indicating capelin occupy between 0.72% (April) and 3.45% (November) of the total modelled space. Furthermore, our analysis reveals that the importance of modelled oceanographic variables, such as temperature, varies between months (44% permutation importance in August to 2% in May). By capturing the spatial dynamics of capelin over horizontal, vertical, and temporal axes, our analysis builds on work that improves our understanding and predictive modelling ability of pelagic species distributions under current and future conditions for proactive ecosystem-based management.
Clinically significant incidental findings during preoperative computed tomography of patients undergoing cardiac surgery
Authors: Sef Davorin , Birdi Inderpaul 
Published: July 2020

Abstract
With the development of minimally invasive cardiac surgery, chest and abdominal computed tomography (CT) scans are becoming an integral part of preoperative assessment and planning. Therefore, the number of incidental findings (IFs) detected with CT is rising. We aimed to investigate the frequency of clinically significant IFs on chest and abdominal CT scans performed during the preoperative assessment of patients undergoing adult cardiac surgery in a 2-year period. In a cohort of 401 patients (mean age 67.4 ± 12.3, female gender 28.9%, median logistic EuroSCORE 5.8 [0.9, 90.5]) who underwent chest or abdominal CT imaging during the study period, we identified 75 patients (18.7%) with clinically significant IFs who needed a further treatment or work-up to confirm the diagnosis or postoperative follow-up. Our data indicate that clinically significant IFs in patients referred for cardiac surgery are frequent. It is important to identify clinically significant Ifs, as a clear postoperative follow-up plan should be made.
Inverse Steklov Spectral Problem for Curvilinear Polygons
Authors: Krymski Stanislav , Levitin Michael , Parnovski Leonid , Polterovich Iosif , Sher David A 
Published: July 2020

Abstract
This paper studies the inverse Steklov spectral problem for curvilinear polygons. For generic curvilinear polygons with angles less than $\pi $, we prove that the asymptotics of Steklov eigenvalues obtained in [ 20] determines, in a constructive manner, the number of vertices and the properly ordered sequence of side lengths, as well as the angles up to a certain equivalence relation. We also present counterexamples to this statement if the generic assumptions fail. In particular, we show that there exist non-isometric triangles with asymptotically close Steklov spectra. Among other techniques, we use a version of the Hadamard–Weierstrass factorization theorem, allowing us to reconstruct a trigonometric function from the asymptotics of its roots.
Crystal structure of the ternary complex of TCR, MHC class I and lipopeptides
Authors: Morita Daisuke , Iwashita Chieri , Mizutani Tatsuaki , Mori Naoki , Mikami Bunzo , Sugita Masahiko 
Published: July 2020

Abstract
The covalent conjugation of a 14-carbon fatty acid (myristic acid) to the N-terminal Gly residue, termed N-myristoylation, occurs in some viral proteins to dictate their pathological function. This protein lipidation reaction, however, is monitored by host cytotoxic T lymphocytes that are capable of recognizing N-terminal lipopeptide fragments in the context of major histocompatibility complex (MHC) class I molecules. In a rhesus model of human AIDS, for example, the classical MHC class I allomorph, Mamu-B*05104, was shown to bind SIV Nef-derived 4-mer lipopeptides (myristic acid-Gly-Gly-Ala-Ile; C14nef4) and present them to the CD8+ T-cell line, SN45. These lipopeptides accommodated in MHC class I molecules expose much shorter peptide chains than conventional MHC class I-presented 8–10-mer peptides, and the molecular mechanisms by which αβ T-cell receptors (TCRs) recognize lipopeptides currently remain unclear. An X-ray crystallographic analysis of the SN45 TCR α and β heterodimer in a form that was co-crystallized with the C14nef4-bound Mamu-B*05104 complex indicated that the amide group of the N-myristoylated glycine residue offered a primary T-cell epitope by establishing a sole hydrogen bond between its nitrogen atom and the side chain of Glu at position 101 of CDR3β. Accordingly, the Glu to Ala mutation at this position resulted in the loss of lipopeptide recognition. On the other hand, TCRs were positioned remotely from the peptide portion of C14nef4, and strong interactions were not observed. Thus, these observations provide novel structural insights into lipopeptide recognition by TCRs, which contrast sharply with the general molecular principle of peptide recognition.
Activity of cefepime/zidebactam against MDR Escherichia coli isolates harbouring a novel mechanism of resistance based on four-amino-acid inserts in PBP3
Authors: Bhagwat Sachin S , Hariharan Periasamy , Joshi Prashant R , Palwe Snehal R , Shrivastava Rahul , Patel Mahesh V , Devanga Ragupathi Naveen Kumar , Bakthavatchalam Yamuna Devi , Ramesh Mayur S , Soman Rajeev , Veeraraghavan Balaji 
Published: July 2020

Abstract

Background
Recent reports reveal the emergence of Escherichia coli isolates harbouring a novel resistance mechanism based on four-amino-acid inserts in PBP3. These organisms concomitantly expressed ESBLs or/and serine-/metallo-carbapenemases and were phenotypically detected by elevated aztreonam/avibactam MICs.

Objectives
The in vitro activities of the investigational antibiotic cefepime/zidebactam and approved antibiotics (ceftazidime/avibactam, ceftolozane/tazobactam, imipenem/relebactam and others) were determined against E. coli isolates harbouring four-amino-acid inserts in PBP3.

Methods
Whole-genome sequenced E. coli isolates (n = 89) collected from a large tertiary care hospital in Southern India (n = 64) and from 12 tertiary care hospitals located across India (n = 25) during 2016–18, showing aztreonam/avibactam MICs ≥1 mg/L (≥4 times the aztreonam epidemiological cut-off) were included in this study. The MICs of antibiotics were determined using the reference broth microdilution method.

Results
Four-amino-acid inserts [YRIK (n = 30) and YRIN (n = 53)] were found in 83/89 isolates. Among 83 isolates, 65 carried carbapenemase genes [blaNDM (n = 39), blaOXA-48-like (n = 11) and blaNDM + blaOXA-48-like (n = 15)] and 18 isolates produced ESBLs/class C β-lactamases only. At least 16 unique STs were noted. Cefepime/zidebactam demonstrated potent activity, with all isolates inhibited at ≤1 mg/L. Comparator antibiotics including ceftazidime/avibactam and imipenem/relebactam showed limited activities.

Conclusions
E. coli isolates concurrently harbouring four-amino-acid inserts in PBP3 and NDM are an emerging therapeutic challenge. Assisted by the PBP2-binding action of zidebactam, the cefepime/zidebactam combination overcomes both target modification (PBP3 insert)- and carbapenemase (NDM)-mediated resistance mechanisms in E. coli.
Antimicrobial Stewardship Optimization in the Emergency Department: The Effect of Multiplex Respiratory Pathogen Testing and Targeted Educational Intervention
Authors: Durant Thomas J S , Kubilay Nejla Zeynep , Reynolds Jesse , Tarabar Asim F , Dembry Louise M , Peaper David R 
Published: July 2020

Abstract

Background
Antibacterial agents are often prescribed for patients with suspected respiratory tract infections even though these are most often caused by viruses. In this study, we sought to evaluate the effect of Respiratory Pathogen Panel (RPP) PCR result availability and antimicrobial stewardship education on antibiotic prescription rates in the adult emergency department (ED).

Methods
We compared rates of antibacterial and oseltamivir prescriptions between 2 nonconsecutive influenza seasons among ED visits, wherein the latter season followed the implementation of a comprehensive educational stewardship campaign. In addition, we sought to elucidate the effect of RPP-PCR on antibiotic prescriptions, with focus on result availability prior to the conclusion of emergency department encounters.

Results
Antibiotic prescription rates globally decreased by 17.9% in the FS-17/18 cohort compared to FS-14/15 (P &lt; 0.001), while oseltamivir prescription rates stayed the same overall (P = 0.42). Multivariate regression across both cohorts revealed that patients were less likely to receive antibiotics if RPP-PCR results were available before the end of the ED visit or if the RPP-PCR result was positive for influenza. Patients in the educational intervention cohort were also less likely to receive an antibiotic prescription.

Conclusion
This study provides evidence that RPP-PCR results are most helpful if available prior to the end of the provider-patient interaction. Further, these data suggest that detection of influenza remains an influential result in the context of antimicrobial treatment decision making. In addition, these data contribute to the body of literature which supports comprehensive ASP interventions including leadership and patient engagement.
Colostrum composition and immunoglobulin G content in dairy and dual-purpose cattle breeds
Authors: Kessler Evelyne C , Bruckmaier Rupert M , Gross Josef J 
Published: July 2020

Abstract
Immunoglobulins (Ig) are essential components in the colostrum of bovine species that enable passive immunization of newborn calves. Concentrations of fat and protein are greater in colostrum compared with mature milk and represent a vital source of energy and nutrients. Colostral IgG was shown to vary between individual dairy cows, but comparative data on different breeds and performance levels are scarce. The objective of the present field study was to investigate the contents of total IgG, fat, protein, and lactose in colostrum in different Swiss and German dairy and dual-purpose breeds. We collected colostrum samples of 458 cows of 13 different breeds (dairy breeds: Brown Swiss, Swiss and German Holstein Friesian, and New Zealand Holstein; dual-purpose breeds: German Fleckvieh, Holstein Friesian × Montbéliarde, Montbéliarde, Murnau-Werdenfels, Original Braunvieh, Pinzgauer, Rhetic Gray, and Simmental; and beef-type crossbred: Charolais × Holstein Friesian). Colostrum samples were obtained between 5 and 900 min after calving and analyzed for total IgG, fat protein, and lactose contents. Immunoglobulin G concentrations varied between 12.7 and 204.0 mg/mL. No effect of breeding purpose (i.e., dairy or dual-purpose) nor of previous lactation yield on IgG content was observed. However, milking of cows for the first time later than 12 h after parturition resulted in lower colostrum IgG concentrations compared with colostrum harvest within 9 h after calving (P &lt; 0.05). Multiparous cows had a higher colostral IgG concentration than primiparous cows (P &lt; 0.0001). Overall, concentrations of IgG and other constituents in colostrum varied widely in the different cattle breeds. High-yielding dairy cows did not have poorer colostrum quality compared with lower-yielding animals or beef and dual-purpose breeds, which suggests an individually different transfer of circulating IgG into colostrum.