bluuebunny/crossref_metadata_2025_split huggingface dataset:
Atmospheric model inversion using infrasound signals from the North Korean underground nuclear explosion and the subsequent collapse event in 2017
Authors: Park Junghyun , Assink Jelle , Stump Brian , Hayward Chris , Arrowsmith Stephen , Che Il-Young 
Published: September 2022

SUMMARYThis study focuses on the infrasound signals from the September 2017 North Korean underground nuclear explosion (UNE17) and subsequent collapse event (SCE17) that occurred close to the autumnal equinox when the atmospheric temperature structure undergoes rapid change. Multiple arrivals, including contributions from local, diffracted and epicentral infrasound, generated by UNE17, were observed at eight infrasound arrays in the Korean Peninsula and one IMS infrasound station (IS45) in Russia while at the closest five arrays for SCE17 only epicentral infrasound was observed. The UNE17 signals provide the opportunity to explore the utility of each distinct arrival in constraining atmospheric conditions during the change associated with the equinox. The observed characteristics of the multiple epicentral infrasonic phases (celerity, backazimuth, phase velocity and spectra) suggest propagation paths through the tropospheric, stratospheric and thermospheric waveguides, although geometric ray paths based on a global atmospheric model at the time of the explosion predict only thermospheric returns. The absence of predicted stratospheric returns may reflect errors in the atmospheric models due to the lack of predicted stratospheric winds which are weak and changing close to the autumnal equinox or the limited resolution of the fine-scale structure not captured by current atmospheric models. The differences between the model predictions and the observations suggest that the numerical weather forecast models need to be modified to fully explain the observations. In order to explore the model space that can explain the UNE17 data set, an inversion scheme is applied to atmospheric wind model parameters constrained by the multi-array observations. Zonal and meridional wind profiles are parametrized using empirical orthogonal functions (EOFs) estimated from 1-yr of Ground-to-Space atmospheric specifications. A best-fitting atmospheric model is estimated using a Bayesian approach that assesses the uncertainty in the inverse solution using a joint likelihood function combining components of azimuth deviation, traveltime and phase velocity. The updated atmospheric models from six different EOFs inversions have up to 20 m s–1 stronger zonal and meridional wind speeds in the stratosphere compared to the original model, and explain the stratospheric observations in the data set. This investigation illustrates that modest changes to atmospheric wind models at the time of autumnal equinox can improve the prediction of stratospheric returns.
High-quality chromosome-scale genomes facilitate effective identification of large structural variations in hot and sweet peppers
Authors: Lee Joung-Ho , Venkatesh Jelli , Jo Jinkwan , Jang Siyoung , Kim Geon Woo , Kim Jung-Min , Han Koeun , Ro Nayoung , Lee Hea-Young , Kwon Jin-Kyung , Kim Yong-Min , Lee Tae-Ho , Choi Doil , Van Deynze Allen , Hill Theresa , Kfir Nir , Freiman Aviad , Davila Olivas Nelson H , Elkind Yonatan , Paran Ilan , Kang Byoung-Cheorl 
Published: September 2022

Abstract
Pepper (Capsicum annuum) is an important vegetable crop that has been subjected to intensive breeding, resulting in limited genetic diversity, especially for sweet peppers. Previous studies have reported pepper draft genome assemblies using short read sequencing, but their capture of the extent of large structural variants (SVs), such as presence–absence variants (PAVs), inversions, and copy-number variants (CNVs) in the complex pepper genome falls short. In this study, we sequenced the genomes of representative sweet and hot pepper accessions by long-read and/or linked-read methods and advanced scaffolding technologies. First, we developed a high-quality reference genome for the sweet pepper cultivar ‘Dempsey’ and then used the reference genome to identify SVs in 11 other pepper accessions and constructed a graph-based pan-genome for pepper. We annotated an average of 42 972 gene families in each pepper accession, defining a set of 19 662 core and 23 115 non-core gene families. The new pepper pan-genome includes informative variants, 222 159 PAVs, 12 322 CNVs, and 16 032 inversions. Pan-genome analysis revealed PAVs associated with important agricultural traits, including potyvirus resistance, fruit color, pungency, and pepper fruit orientation. Comparatively, a large number of genes are affected by PAVs, which is positively correlated with the high frequency of transposable elements (TEs), indicating TEs play a key role in shaping the genomic landscape of peppers. The datasets presented herein provide a powerful new genomic resource for genetic analysis and genome-assisted breeding for pepper improvement.
Recoloring tomato fruit by CRISPR/Cas9-mediated multiplex gene editing
Authors: Yang Tianxia , Ali Muhammad , Lin Lihao , Li Ping , He Hongju , Zhu Qiang , Sun Chuanlong , Wu Ning , Zhang Xiaofei , Huang Tingting , Li Chang-Bao , Li Chuanyou , Deng Lei 
Published: September 2022

Abstract
Fruit color is an important horticultural trait, which greatly affects consumer preferences. In tomato, fruit color is determined by the accumulation of different pigments, such as carotenoids in the pericarp and flavonoids in the peel, along with the degradation of chlorophyll during fruit ripening. Since fruit color is a multigenic trait, it takes years to introgress all color-related genes in a single genetic background via traditional crossbreeding, and the avoidance of linkage drag during this process is difficult. Here, we proposed a rapid breeding strategy to generate tomato lines with different colored fruits from red-fruited materials by CRISPR/Cas9-mediated multiplex gene editing of three fruit color-related genes (PSY1, MYB12, and SGR1). Using this strategy, the red-fruited cultivar ‘Ailsa Craig’ has been engineered to a series of tomato genotypes with different fruit colors, including yellow, brown, pink, light-yellow, pink-brown, yellow-green, and light green. Compared with traditional crossbreeding, this strategy requires less time and can obtain transgene-free plants with different colored fruits in less than 1 year. Most importantly, it does not alter other important agronomic traits, like yield and fruit quality. Our strategy has great practical potential for tomato breeding and serves as a reference for improving multigene-controlled traits of horticultural crops.
Acute Kidney Injury after High-Flow Regional Cerebral Perfusion in Neonatal and Infant Aortic Arch Repair
Authors: Shikata Fumiaki , Miyaji Kagami , Kohira Satoshi , Goto Hiroshi , Shinzo Torii , Kitamura Tadashi , Mishima Toshiaki , Fukuzumi Masaomi , Fujioka Shunichiro , Sasahara Akihiro , Araki Haruna 
Published: September 2022

Abstract

OBJECTIVES
We applied high-flow regional cerebral perfusion (HFRCP) for aortic arch reconstruction in neonates and infants by monitoring regional oxygen saturation of the thigh (rSO2T) using near-infrared spectroscopy to maintain peripheral perfusion. This study was designed to investigate the optimal perfusion flow of HFRCP for renal protection.

METHODS
From 2009 to 2021, 28 consecutive neonates and infants who underwent aortic arch reconstruction with HFRCP were enrolled. The median age of the patients was 27 days; the median body weight was 3.0 kg. In HFRCP, perfusion flow was targeted at approximately 80–100 mL/kg/min and then lowered corresponding to brain rSO2 levels and blood gas data. Isosorbide dinitrate and chlorpromazine were administered to enhance peripheral perfusion flow. Regional oxygen saturation of the forehead and thighs were monitored. The stage of acute kidney injury (AKI) was classified based on the Kidney Disease Improving Global Outcomes criteria.

RESULTS
No patients had neurological events and peritoneal dialysis after surgery. The incidence of AKI was 39.3% with only three patients having greater than stage 2 AKI. The maximum postoperative serum creatinine concentration was negatively associated with the lowest rSO2T during HFRCP. The rSO2T during HFRCP was a predictive factor for postoperative creatinine increase of ≧0.3 mg/dL. The area under receiver operating characteristic curve was 0.78 with the cutoff value of 48% for rSO2T.

CONCLUSIONS
The rSO2T during HFRCP is a potential predictor of postoperative renal function. To prevent AKI, the rSO2T should be preserved more than 48% by increasing HFRCP flow.
Second-Generation Human Immunodeficiency Virus Integrase Inhibitors Induce Differentiation Dysregulation and Exert Toxic Effects in Human Embryonic Stem Cell and Mouse Models
Authors: Smith Marie-Soleil R , Mohan Haneesha , Ajaykumar Abhinav , Hsieh Anthony Y Y , Martineau Lou , Patel Ronil , Gadawska Izabella , Sherwood Christopher , Serghides Lena , Piret James M , Côté Hélène C F 
Published: September 2022

Abstract

Background
Each year, approximately 1.1 million children are exposed in utero to human immunodeficiency virus antiretrovirals, yet their safety is often not well characterized during pregnancy. The Tsepamo study reported a neural tube defect signal in infants exposed to the integrase strand transfer inhibitor (InSTI) dolutegravir from conception, suggesting that exposure during early fetal development may be detrimental

Methods
The effects of InSTIs on 2 human embryonic stem cell (hESC) lines were characterized with respect to markers of pluripotency, early differentiation, and cellular health. In addition, fetal resorptions after exposure to InSTIs from conception were analyzed in pregnant mice.

Results
At subtherapeutic concentrations, second-generation InSTIs bictegravir, cabotegravir, and dolutegravir decreased hESC counts and pluripotency and induced dysregulation of genes involved in early differentiation. At therapeutic concentrations, bictegravir induced substantial hESC death and fetal resorptions. It is notable that first-generation InSTI raltegravir did not induce any hESC toxicity or differentiation, at any concentration tested.

Conclusions
Exposure to some InSTIs, even at subtherapeutic concentrations, can induce adverse effects in hESCs and pregnant mice. Given the increasingly prevalent use of second-generation InSTIs, including in women of reproductive age, it is imperative to further elucidate the effect of InSTIs on embryonic development, as well as their long-term safety after in utero exposure.
Localizing the International Relations Classroom: Evaluation of Academic Partnerships with City Government
Authors: Baer Madeline , Haddad Heidi Nichols 
Published: September 2022

Abstract
As the world becomes increasingly “smaller,” global governance too shifts beyond states and formal agreements to include norms and actors at all levels of government and society. Cities, in particular, are emergent actors in global affairs. This paper examines a new type of experiential learning model for this burgeoning local–global governance: academic partnerships with city governments for undergraduate international relations courses. Occidental College and Pomona College have partnered with the Los Angeles Mayor's Office to localize and adopt the United Nations Sustainable Development Goals (SDGs). This study focuses on two Spring 2021 Task Force courses, where students worked in consultation with the Mayor's Office to conduct policy research on local implementation of SDG 5 on gender equality. It analyzes the pedagogical value of the Task Force courses with a focus on student learning outcomes and challenges. Through qualitative content analysis of student reflection papers, we find that the courses generate substantial student learning, particularly in higher forms of learning, including development of research and professional skills and metacognitive reflection on “doing theory,” or praxis, within the international relations discipline. Further, these partnerships also benefit the city, as they generate valuable data that inform policymaking.
Rock physics model for shale gas reservoirs with nanopore adsorption
Authors: Yin Linjie , Yin Xingyao , Li Kun 
Published: September 2022

Abstract
Shale gas is primarily concentrated in nanopores extensively distributed in shale. The elastic properties of nanopores are significantly different from those of pores of larger sizes due to surface effects. How nanopores and adsorbed fluids affect the overall elastic properties of rock is rarely studied. Based on a recently developed nano-elasticity theory, a new method for calculating elastic modulus of nanoporous media considering adsorption is proposed by performing a detailed analysis on the relationship of surface adsorption with surface effects. The surface parameters of nanopores (pore radius, surface elastic moduli) are converted to adsorbed gas ratio and adsorbed gas elastic moduli. The proposed method is then used in rock physics modeling to estimate the elastic properties of nanoporous shale. The quantitative relationships of the effective velocities with adsorbed gas ratio, adsorbed gas elastic modulus and porosity of the shale are established, respectively. An important finding is that the elastic properties of nanoporous shale can be enhanced by increasing adsorbed gas ratio and adsorbed gas elastic moduli. A comparison between the theoretical model with laboratory data and the well data is performed and the results indicate that they are in good agreement. The results in this paper may provide certain insights on rock physics for the quantitative characterization of elastic properties of shale.
Diagnosing and managing a giant primary cutaneous malignant melanoma of the lower limb
Authors: Faderani Ryan , Ali Stephen R , Nijran Amit , Dobbs Thomas D , Karoo Richard 
Published: September 2022

Abstract
We present a woman who was referred to our plastic surgery unit with a suspected squamous cell carcinoma following a 3-year history of an enlarging mass on her thigh. Surprisingly, histopathological assessment confirmed the diagnosis of nodular malignant melanoma measuring 77×77×54 mm with a Breslow thickness of 52 mm, making it the largest recorded lower limb primary cutaneous malignant melanoma in the UK.
Temperature-induced changes in Arabidopsis Rubisco activity and isoform expression
Authors: Cavanagh Amanda P , Slattery Rebecca , Kubien David S 
Published: September 2022

Abstract
In many plant species, expression of the nuclear encoded Rubisco small subunit (SSu) varies with environmental changes, but the functional role of any changes in expression remains unclear. In this study, we investigated the impact of differential expression of Rubisco SSu isoforms on carbon assimilation in Arabidopsis. Using plants grown at contrasting temperatures (10 °C and 30 °C), we confirm the previously reported temperature response of the four RbcS genes and extend this to protein expression, finding that warm-grown plants produce Rubisco containing ~65% SSu-B and cold-grown plants produce Rubisco with ~65% SSu-A as a proportion of the total pool of subunits. We find that these changes in isoform concentration are associated with kinetic changes to Rubisco in vitro: warm-grown plants produce a Rubisco having greater CO2 affinity (i.e. higher SC/O and lower KC) but lower kcatCO2 at warm measurement temperatures. Although warm-grown plants produce 38% less Rubisco than cold-grown plants on a leaf area basis, warm-grown plants can maintain similar rates of photosynthesis to cold-grown plants at ambient CO2 and 30 °C, indicating that the carboxylation capacity of warm-grown Rubisco is enhanced at warmer measurement temperatures, and is able to compensate for the lower Rubisco content in warm-grown plants. This association between SSu isoform expression and maintenance of Rubisco activity at high temperature suggests that SSu isoform expression could impact the temperature response of C3 photosynthesis.
Five Influential Factors for Clinical Team Performance in Urgent, Emergency Care Contexts
Authors: Andreatta Pamela B , Graybill John Christopher , Renninger Christopher H , Armstrong Robert K , Bowyer Mark W , Gurney Jennifer M 
Published: September 2022

ABSTRACTIntroductionIn deployed contexts, military medical care is provided through the coordinated efforts of multiple interdisciplinary teams that work across and between a continuum of widely distributed role theaters. The forms these teams take, and functional demands, vary by roles of care, location, and mission requirements. Understanding the requirements for optimal performance of these teams to provide emergency, urgent, and trauma care for multiple patients simultaneously is critical. A team’s collective ability to function is dependent on the clinical expertise (knowledge and skills), authority, experience, and affective management capabilities of the team members. Identifying the relative impacts of multiple performance factors on the accuracy of care provided by interdisciplinary clinical teams will inform targeted development requirements.Materials and MethodsA regression study design determined the extent to which factors known to influence team performance impacted the effectiveness of small, six to eight people, interdisciplinary teams tasked with concurrently caring for multiple patients with urgent, emergency care needs. Linear regression analysis was used to distinguish which of the 11 identified predictors individually and collectively contributed to the clinical accuracy of team performance in simulated emergency care contexts.ResultsAll data met the assumptions for regression analyses. Stepwise linear regression analysis of the 11 predictors on team performance yielded a model of five predictors accounting for 82.30% of the variance. The five predictors of team performance include (1) clinical skills, (2) team size, (3) authority profile, (4) clinical knowledge, and (5) familiarity with team members. The analysis of variance confirmed a significant linear relationship between team performance and the five predictors, F(5, 240) = 218.34, P &lt; .001.ConclusionsThe outcomes of this study demonstrate that the collective knowledge, skills, and abilities within an urgent, emergency care team must be developed to the extent that each team member is able to competently perform their role functions and that smaller teams benefit by being composed of clinical authorities who are familiar with each other. Ideally, smaller, forward-deployed military teams will be an expert team of individual experts, with the collective expertise and abilities required for their patients. This expertise and familiarity are advantageous for collective consideration of significant clinical details, potential alternatives for treatment, decision-making, and effective implementation of clinical skills during patient care. Identifying the most influential team performance factors narrows the focus of team development strategies to precisely what is needed for a team to optimally perform.
P006 Resistance of Aspergillus flavus clinical isolates and associated fitness-cost
Authors: Djenontin Elie , Debourgogne Anne , Bergui Imane , Costa Jean-Marc , Mousavi Bita , Ait-Ammar Nawel , Guillot Jacques , Botterel Françoise , Dannaoui Eric 
Published: September 2022

Abstract

Poster session 1, September 21, 2022, 12:30 PM - 1:30 PM

Objectives
Aspergillus flavus and closely related species could be pathogenic for humans, animals, and plants and could also produce mycotoxins. The members of the Flavi section are morphologically quite similar making precise identification to the species level difficult. In this study, we present the antifungal susceptibility profiles of French clinical isolates belonging to the Flavi section. Isolates have been characterized by molecular methods and the potential fitness-cost associated with azole-resistance has been determined.

Methods
A total of 120 isolates phenotypically identified as A. flavus were included in the study. These clinical isolates were recovered over a 15-year period (2001-2015). For all isolates, specific identification was confirmed by sequencing a part of the β-tubulin and calmodulin genes. The isolates were first screened for their susceptibility to azoles antifungal agents by using 3-sectors agar plates containing itraconazole, voriconazole, and a drug-free control. Susceptibility to six antifungal drugs was further determined by using the EUCAST reference microdilution broth technique. Fitness cost was evaluated by growth curve kinetics in RPMI and by evaluation of virulence in a Galleria mellonella invertebrate animal model.

Results
Out of 120 isolates, molecular analysis of the partial β-tubulin and calmodulin sequences showed that 117 isolates were A. flavus sensu stricto and the three remaining corresponded to A. parasiticus, A. nomius, and A. tamarii. Two isolates were azole-resistant by the screening test. For the A. flavus sensu stricto isolates, the geometric mean MIC values (range) of amphotericin B, itraconazole, voriconazole, posaconazole, isavuconazole, and caspofungin were 1.84 (0.25-16), 0.29 (0.125-2), 0.82 (0.5-8), 0.27 (0.06-2), 1.15 (0.25-8), and 0.061 (0.03-0.125) μg/ml, respectively. For A. parasiticus, A. nomius, and A. tamarii, MICs were in the same range. Two A. flavus sensu stricto isolates (AfR1 and AfR2) had voriconazole and isavuconazole MICs at 8 μg/ml. Compared to susceptible isolates, these two azole-resistant isolates had a delayed growth in RPMI liquid medium. In the G. mellonella model, the mortality was 100% for susceptible isolates. In contrast, the Galleria infected by AfR1 and AfR2 showed a significantly lower mortality rate.

Conclusion
Antifungal susceptibility to six drugs was determined on a large collection of clinical isolates belonging to Aspergillus Flavi section. Most of the isolates were identified as A. flavus sensu stricto and most of them were susceptible to antifungal drugs. Nevertheless, the occurrence of two resistant isolates highlights the need for susceptibility testing for A. flavus. It seems that azole-resistance is associated with a fitness-cost including a lower growth rate and a lower virulence.
P013 Green synthesis of silver nanoparticles using Trillium govanianum and its antifungal potential against Candida auris
Authors: Negi Preeti , Raj Khem , Verma Nandini , Riyaz Mohammad 
Published: September 2022

Abstract

Poster session 1, September 21, 2022, 12:30 PM - 1:30 PM

Objective
This study aimed to evaluate the antifungal and anti-biofilm activities of silver nanoparticles synthesized using Trillium govanianum, a trans-Himalayan medicinal plant extract, against multidrug-resistant Candida auris.

Methods
Silver nanoparticles (AgNPs) were synthesized by adopting a green approach. Optimization and characterization of TG-AgNPs were carried out using UV-VIS spectroscopy, TEM, and FTIR. Minimum inhibitory concentration (MIC), minimum fungicidal concentration (MFC), and antibiofilm activity of the crude extract, as well as TG-nanoparticles, were evaluated. Furthermore, their effect on cell morphology and cell permeability was also analyzed using FESEM.

Results
Crude extracts of roots of T. govanianum exerted remarkable antifungal activity against multiple strains of Candida auris. The incorporation of silver nanoparticles to plant extract significantly improved the antifungal and antibiofilm activities against the tested strains in a synergistic manner.

Conclusion
Silver nanoparticles synthesized using Trillium govanianum extract provide eco-friendly, biocompatible nanostructures with antifungal activity and have the potential for use as a therapeutic/nutraceutical agent.