bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effectiveness of the natural resistance management refuge for Bt-cotton is dominated by local abundance of soybean and maize
Authors: Arends Benjamin , Reisig Dominic D. , Gundry Shawnee , Huseth Anders S. , Reay-Jones Francis P. F. , Greene Jeremy K. , Kennedy George G. 
Published: September 2021

AbstractGenetically engineered crops expressing Bacillus thuringiensis (Bt) Cry toxins have transformed insect management in maize and cotton, reducing insecticide use and associated off-target effects. To mitigate the risk that pests evolve resistance to Bt crops, the US Environmental Protection Agency requires resistance management measures. The approved resistance management plan for Bt maize in cotton production regions requires a structured refuge of non-Bt maize equal to 20% of the maize planted; that for Bt cotton relies on the presence of an unstructured natural refuge comprising both non-Bt crop and non-crop hosts. We examined how abundance of Bt crops (cotton and maize) and an important non-Bt crop (soybean) component of the natural refuge affect resistance to Bt Cry1Ac toxin in local populations of Helicoverpa zea, an important lepidopteran pest impacted by Bt cotton and maize. We show refuge effectiveness is responsive to local abundances of maize and cotton and non-Bt soybean, and maize, in its role as a source of H. zea infesting cotton and non-Bt hosts, influences refuge effectiveness. These findings have important implications for commercial and regulatory decisions regarding deployment of Bt toxins targeting H. zea in maize, cotton, and other crops and for assumptions regarding efficacy of natural refuges.
Glutamine metabolism regulates endothelial to hematopoietic transition and hematopoietic lineage specification
Authors: Oburoglu Leal , Mansell Els , Woods Niels-Bjarne 
Published: September 2021

AbstractDuring hematopoietic development, definitive hematopoietic cells are derived from hemogenic endothelial (HE) cells through a process known as endothelial to hematopoietic transition (EHT). During EHT, transitioning cells proliferate and undergo progressive changes in gene expression culminating in the new cell identity with corresponding changes in function, phenotype and morphology. However, the metabolic pathways fueling this transition remain unclear. We show here that glutamine is a crucial regulator of EHT and a rate limiting metabolite in the hematopoietic differentiation of HE cells. Intriguingly, different hematopoietic lineages require distinct derivatives of glutamine. While both derivatives, α-ketoglutarate and nucleotides, are required for early erythroid differentiation of HE during glutamine deprivation, lymphoid differentiation relies on α-ketoglutarate alone. Furthermore, treatment of HE cells with α-ketoglutarate in glutamine-free conditions pushes their differentiation towards lymphoid lineages both in vitro and in vivo, following transplantation into NSG mice. Thus, we report an essential role for glutamine metabolism during EHT, regulating both the emergence and the specification of hematopoietic cells through its various derivatives.
Aggravation of fibrin deposition and microthrombus formation within the graft during kidney transplantation
Authors: van den Berg Tamar A. J. , van den Heuvel Marius C. , Wiersema-Buist Janneke , Adelmeijer Jelle , Nieuwenhuijs-Moeke Gertrude J. , Lisman Ton , Bakker Stephan J. L. , van Goor Harry ,   TransplantLines Investigators, Annema-de Jong J. H. , Bakker S. J. L. , Berger S. P. , Blokzijl J. , Bodewes F. A. J. A. , de Boer M. T. , Damman K. , De Borst M. H. , Diepstra A. , Dijkstra G. , Douwes R. M. , Eisenga M. F. , Erasmus M. E. , Gan C. T. , Neto A. W. Gomes , Grootjans H. , Hak E. , Heiner-Fokkema M. R. , Hepkema B. G. , Klont F. , Knobbe T. J. , Kremer D. , Leuvenink H. G. D. , Lexmond W. S. , de Meijer V. E. , Niesters H. G. M. , van Pelt L. J. , Pol R. A. , Porte R. J. , Ranchor A. V. , Sanders J. S. F. , Schutten J. C. , Siebelink M. J. , Slart R. H. J. A. , Swarte J. C. , Timens W. , Touw D. J. , van den Heuvel M. C. , van Leer-Buter C. , van Londen M. , Verschuuren E. A. M. , Vos M. J. , Weersma R. K. , Pol Robert A. 
Published: September 2021

AbstractIn kidney transplantation, microthrombi and fibrin deposition may lead to local perfusion disorders and subsequently poor initial graft function. Microthrombi are often regarded as donor-derived. However, the incidence, time of development, and potential difference between living donor kidneys (LDK) and deceased donor kidneys(DDK), remains unclear. Two open-needle biopsies, taken at preimplantation and after reperfusion, were obtained from 17 LDK and 28 DDK transplanted between 2005 and 2008. Paraffin-embedded sections were immunohistochemically stained with anti-fibrinogen antibody. Fibrin deposition intensity in peritubular capillaries(PTC) and glomeruli was categorized as negative, weak, moderate or strong and the number of microthrombi/mm2 was quantified. Reperfusion biopsies showed more fibrin deposition (20% to 100% moderate/strong, p < 0.001) and more microthrombi/mm2 (0.97 ± 1.12 vs. 0.28 ± 0.53, p < 0.01) than preimplantation biopsies. In addition, more microthrombi/mm2 (0.38 ± 0.61 vs. 0.09 ± 0.22, p = 0.02) and stronger fibrin intensity in glomeruli (28% vs. 0%, p < 0.01) and PTC (14% vs. 0%, p = 0.02) were observed in preimplantation DDK than LDK biopsies. After reperfusion, microthrombi/mm2 were comparable (p = 0.23) for LDK (0.09 ± 0.22 to 0.76 ± 0.49, p = 0.03) and DDK (0.38 ± 0.61 to 0.90 ± 1.11, p = 0.07). Upon reperfusion, there is an aggravation of microthrombus formation and fibrin deposition within the graft. The prominent increase of microthrombi in LDK indicates that they are not merely donor-derived.
Incorporation of causality structures to complex network analysis of time-varying behaviour of multivariate time series
Authors: Carlos-Sandberg Leo , Clack Christopher D. 
Published: September 2021

AbstractThis paper presents a new methodology for characterising the evolving behaviour of the time-varying causality between multivariate time series, from the perspective of change in the structure of the causality pattern. We propose that such evolutionary behaviour should be tracked by means of a complex network whose nodes are causality patterns and edges are transitions between those patterns of causality. In our new methodology each edge has a weight that includes the frequency of the given transition and two metrics relating to the gross and net structural change in causality pattern, which we call$$\alpha$$αand$$\beta$$β. To characterise aspects of the behaviour within this network, five approaches are presented and motivated. To act as a demonstration of this methodology an application of sample data from the international oil market is presented. This example illustrates how our new methodology is able to extract information about evolving causality behaviour. For example, it reveals non-random time-varying behaviour that favours transitions resulting in predominantly similar causality patterns, and it discovers clustering of similar causality patterns and some transitional behaviour between these clusters. The example illustrates how our new methodology supports the inference that the evolution of causality in the system is related to the addition or removal of a few causality links, primarily keeping a similar causality pattern, and that the evolution is not related to some other measure such as the overall number of causality links.
Prediction of blood supply in vestibular schwannomas using radiomics machine learning classifiers
Authors: Song Dixiang , Zhai Yixuan , Tao Xiaogang , Zhao Chao , Wang Minkai , Wei Xinting 
Published: September 2021

AbstractThis study attempts to explore the radiomics-based features of multi-parametric magnetic resonance imaging (MRI) and construct a machine-learning model to predict the blood supply in vestibular schwannoma preoperatively. By retrospectively collecting the preoperative MRI data of patients with vestibular schwannoma, patients were divided into poor and rich blood supply groups according to the intraoperative recording. Patients were divided into training and test cohorts (2:1), randomly. Stable features were retained by intra-group correlation coefficients (ICCs). Four feature selection methods and four classification methods were evaluated to construct favorable radiomics classifiers. The mean area under the curve (AUC) obtained in the test set for different combinations of feature selecting methods and classifiers was calculated separately to compare the performance of the models. Obtain and compare the best combination results with the performance of differentiation through visual observation in clinical diagnosis. 191 patients were included in this study. 3918 stable features were extracted from each patient. Least absolute shrinkage and selection operator (LASSO) and logistic regression model was selected as the optimal combinations after comparing the AUC calculated by models, which predicted the blood supply of vestibular schwannoma by K-Fold cross-validation method with a mean AUC = 0.88 and F1-score = 0.83. Radiomics machine-learning classifiers can accurately predict the blood supply of vestibular schwannoma by preoperative MRI data.
Neuronal mitochondrial dysfunction in sporadic amyotrophic lateral sclerosis is developmentally regulated
Authors: Singh Tanisha , Jiao Yuanyuan , Ferrando Lisa M. , Yablonska Svitlana , Li Fang , Horoszko Emily C. , Lacomis David , Friedlander Robert M. , Carlisle Diane L. 
Published: September 2021

AbstractAmyotrophic lateral sclerosis is an adult-onset neurodegenerative disorder characterized by loss of motor neurons. Mitochondria are essential for neuronal survival but the developmental timing and mechanistic importance of mitochondrial dysfunction in sporadic ALS (sALS) neurons is not fully understood. We used human induced pluripotent stem cells and generated a developmental timeline by differentiating sALS iPSCs to neural progenitors and to motor neurons and comparing mitochondrial parameters with familial ALS (fALS) and control cells at each developmental stage. We report that sALS and fALS motor neurons have elevated reactive oxygen species levels, depolarized mitochondria, impaired oxidative phosphorylation, ATP loss and defective mitochondrial protein import compared with control motor neurons. This phenotype develops with differentiation into motor neurons, the affected cell type in ALS, and does not occur in the parental undifferentiated sALS cells or sALS neural progenitors. Our work demonstrates a developmentally regulated unifying mitochondrial phenotype between patient derived sALS and fALS motor neurons. The occurrence of a unifying mitochondrial phenotype suggests that mitochondrial etiology known to SOD1-fALS may applicable to sALS. Furthermore, our findings suggest that disease-modifying treatments focused on rescue of mitochondrial function may benefit both sALS and fALS patients.
Effects of rewarming with extracorporeal membrane oxygenation to restore oxygen transport and organ blood flow after hypothermic cardiac arrest in a porcine model
Authors: Nilsen Jan Harald , Schanche Torstein , Valkov Sergei , Mohyuddin Rizwan , Haaheim Brage , Kondratiev Timofei V. , Næsheim Torvind , Sieck Gary C. , Tveita Torkjel 
Published: September 2021

AbstractWe recently documented that cardiopulmonary resuscitation (CPR) generates the same level of cardiac output (CO) and mean arterial pressure (MAP) during both normothermia (38 °C) and hypothermia (27 °C). Furthermore, continuous CPR at 27 °C provides O2 delivery (ḊO2) to support aerobic metabolism throughout a 3-h period. The aim of the present study was to investigate the effects of extracorporeal membrane oxygenation (ECMO) rewarming to restore ḊO2 and organ blood flow after prolonged hypothermic cardiac arrest. Eight male pigs were anesthetized and immersion cooled to 27 °C. After induction of hypothermic cardiac arrest, CPR was started and continued for a 3-h period. Thereafter, the animals were rewarmed with ECMO. Organ blood flow was measured using microspheres. After cooling with spontaneous circulation to 27 °C, MAP and CO were initially reduced to 66 and 44% of baseline, respectively. By 15 min after the onset of CPR, there was a further reduction in MAP and CO to 42 and 25% of baseline, respectively, which remained unchanged throughout the rest of 3-h CPR. During CPR, ḊO2 and O2 uptake (V̇O2) fell to critical low levels, but the simultaneous small increase in lactate and a modest reduction in pH, indicated the presence of maintained aerobic metabolism. Rewarming with ECMO restored MAP, CO, ḊO2, and blood flow to the heart and to parts of the brain, whereas flow to kidneys, stomach, liver and spleen remained significantly reduced. CPR for 3-h at 27 °C with sustained lower levels of CO and MAP maintained aerobic metabolism sufficient to support ḊO2. Rewarming with ECMO restores blood flow to the heart and brain, and creates a “shockable” cardiac rhythm. Thus, like continuous CPR, ECMO rewarming plays a crucial role in “the chain of survival” when resuscitating victims of hypothermic cardiac arrest.
The prevailing O serogroups among the serologically differentiated clinical Proteus spp. strains in central Poland
Authors: Drzewiecka Dominika , Palusiak Agata , Siwińska Małgorzata , Zabłotni Agnieszka 
Published: September 2021

AbstractIn the years 2006–2011, 617 Proteus spp. strains isolated mostly from urine and wounds or other clinical sources were collected in Łódź, Poland, to determine the offensive O serotypes frequently occurring among patients. P. mirabilis exhibited the most intensive swarming growth and was dominating species (86.9%), followed by P. genomospecies, P. vulgaris, and P. penneri. Ninety four per cent strains were recognized as S (smooth) forms. Serological studies (involving ELISA—enzyme-linked immunosorbent assay and Western blotting using native and adsorbed rabbit antisera) enabled classification of 80% S isolates into respective Proteus O serogroups among the 83 ones, described so far. The remaining strains seemed to be serologically unique. Despite the observed big serological variety of Proteus spp. isolates, we found the O78 serogroup recently described in Poland as dominating and identified other widespread serotypes: O3, O6, O10, O11, O27, O28, and O30 reported earlier as predominating also in other countries; O77 and O79 detected lately in Poland; O16, O18, O20, and O50. No unique structural feature of the prevalent O serotypes has been indicated. However, the prevalence of some O serogroups indicates that particular serotypes may be in some ways beneficial to the strains producing these kinds of O antigen.
Normobaric oxygen treatment for mild-to-moderate depression: a randomized, double-blind, proof-of-concept trial
Authors: Bloch Yehudit , Belmaker R. H. , Shvartzman Pesach , Romem Pnina , Bolotin Arkady , Bersudsky Yuly , Azab Abed N. 
Published: September 2021

AbstractOxygen enriched air may increase oxygen pressure in brain tissue and have biochemical effects even in subjects without lung disease. Consistently, several studies demonstrated that normobaric oxygen treatment has clinical benefits in some neurological conditions. This study examined the efficacy of normobaric oxygen treatment in subjects with depression. In a randomized, double-blind trial, 55 participants aged 18–65 years with mild to moderate depression (had a Hamilton Rating Scale for Depression [HRSD] score of ≥ 8) were recruited to the study from the Southern district in Israel. Participants underwent a psychiatric inclusion assessment at baseline and then were randomly assigned to either normobaric oxygen treatment of 35% fraction of inspired oxygen or 21% fraction of inspired oxygen (room air) through a nasal tube, for 4 weeks, during the night. Evaluations were performed at baseline, 2 and 4 weeks after commencement of study interventions, using the following tools: HRSD; Clinical Global Impression (CGI) questionnaire; World Health Organization-5 questionnaire for the estimation of Quality of Life (WHO-5-QOL); Sense of Coherence (SOC) 13-item questionnaire; and, Sheehan Disability Scale (SDS). A multivariate regression analysis showed that the mean ± standard deviation [SD] changes in the HRSD scores from baseline to week four were − 4.2 ± 0.3 points in the oxygen-treated group and − 0.7 ± 0.6 in the control group, for a between-group difference of 3.5 points (95% confidence interval [CI] − 5.95 to − 1.0; P = 0.007). Similarly, at week four there was a between-group difference of 0.71 points in the CGI score (95% CI − 1.00 to − 0.29; P = 0.001). On the other hand, the analysis revealed that there were no significant differences in WHO-5-QOL, SOC-13 or SDS scores between the groups. This study showed a significant beneficial effect of oxygen treatment on some symptoms of depression.Trial registration: NCT02149563 (29/05/2014).
Decreased head circumference at birth associated with maternal tobacco smoke exposure during pregnancy on the Japanese prospective birth cohort study
Authors: Shiohama Tadashi , Hisada Aya , Yamamoto Midori , Sakurai Kenichi , Takatani Rieko , Fujii Katsunori , Shimojo Naoki , Mori Chisato ,   the Japan Environment Children’s Study (JECS) Group, Kamijima Michihiro , Yamazaki Shin , Ohya Yukihiro , Kishi Reiko , Yaegashi Nobuo , Hashimoto Koichi , Mori Chisato , Ito Shuichi , Yamagata Zentaro , Inadera Hidekuni , Nakayama Takeo , Iso Hiroyasu , Shima Masayuki , Kurozawa Youichi , Suganuma Narufumi , Kusuhara Koichi , Katoh Takahiko 
Published: September 2021

AbstractMaternal tobacco smoke exposure during pregnancy impairs fetal body size, including head circumference (HC) at birth; however, the mechanism still remains unclear. This analysis using a large prospective cohort study evaluated the impact of maternal tobacco exposure on their offspring’s HC and the relationship with placental weight ratio (PWR) and placental abnormalities. Parents-children pairs (n = 84,856) were included from the 104,065 records of the Japan Environmental and Children’s Study. Maternal perinatal clinical and social information by self-administered questionnaires, offspring’s body size, and placental information were collected. Data were analyzed with binominal logistic regression analysis and path analysis. Logistic regression showed significantly elevated adjusted odds ratio (aOR) (1.653, 95% CI 1.387–1.969) for the impact of maternal smoking during pregnancy on their offspring’s smaller HC at birth. Maternal exposure to environmental tobacco smoke in the non-smoking group did not increase aOR for the smaller HC. Path analysis showed that maternal smoking during pregnancy decreased the offspring’s HC directly, but not indirectly via PWR or placental abnormalities. The quitting smoking during pregnancy group did not increase aOR for the smaller HC than the non-smoking group, suggesting that quitting smoking may reduce their offspring’s neurological impairment even after pregnancy.
Predictive model for microclimatic temperature and its use in mosquito population modeling
Authors: Erraguntla Madhav , Dave Darpit , Zapletal Josef , Myles Kevin , Adelman Zach N. , Pohlenz Tyler D. , Lawley Mark 
Published: September 2021

AbstractMosquitoes transmit several infectious diseases that pose significant threat to human health. Temperature along with other environmental factors at breeding and resting locations play a role in the organismal development and abundance of mosquitoes. Accurate analysis of mosquito population dynamics requires information on microclimatic conditions at breeding and resting locations. In this study, we develop a regression model to characterize microclimatic temperature based on ambient environmental conditions. Data were collected by placing sensor loggers at resting and breeding locations such as storm drains across Houston, TX. Corresponding weather data was obtained from National Oceanic and Atmospheric Administration website. Features extracted from these data sources along with contextual information on location were used to develop a Generalized Linear Model for predicting microclimate temperatures. We also analyzed mosquito population dynamics forAedes albopictusunder ambient and microclimatic conditions using system dynamic (SD) modelling to demonstrate the need for accurate microclimatic temperatures in population models. The microclimate prediction model had an R2value of ~ 95% and average prediction error of ~ 1.5 °C indicating that microclimate temperatures can be reliably estimated from the ambient environmental conditions. SD model analysis indicates that some microclimates in Texas could result in larger populations of juvenile and adultAedes albopictusmosquitoes surviving the winter without requiring dormancy.
High concordance in preimplantation genetic testing for aneuploidy between automatic identification via Ion S5 and manual identification via Miseq
Authors: Chuang Tzu-Hsuan , Wu Zih-Huei , Kuan Chin-Sheng , Lee Meng-Ju , Hsieh Chia-Lin , Wang Huai-Lin , Lai Hsing-Hua , Chang Yu-Jen , Chen Shee-Uan 
Published: September 2021

AbstractThe Ion S5 (Thermo Fisher Scientific) and Miseq (Illumina) NGS systems are both widely used in the clinical laboratories conducting PGT-A. Each system employs discrepant library preparation steps, sequencing principles, and data processing algorithms. The automatic interpretation via Ion Reporter software (Thermo Fisher Scientific) and the manual interpretation via BlueFuse Multi software (Illumina) for chromosomal copy number variation (CNV) represent very different reporting approaches. Thus, it is intriguing to compare their ability of ploidy detection as PGT-A/NGS system. In the present study, four aneuploid cell lines were individually mixed with a diploid cell line at different aneuploid ratios of 0% (0:5), 10% (1:9), 20% (1:4), 40% (2:3), 50% (3:3), 60% (3:2), 80% (4:1) and 100% (5:0) to assess the sensitivity and specificity for whole chromosomal and segmental aneuploidy detection. The clinical biopsies of 107 blastocysts from 46 IVF/PGT-A cycles recruited between December 2019 and February 2020 were used to calculate the concordance. Initially, the pre-amplified products were divided into two aliquots for different library preparation procedures of each system. Applying the same calling criteria, automatic identification was achieved through the Ion Reporter, while well-trained technicians manually identified each sample through the BlueFuse Multi. The results displayed that both systems reliably distinguished chromosomal CNV of the mixtures with at least 10% aneuploidy from karyotypically normal samples ([Ion S5] whole-chromosomal duplication: 2.14 vs. 2.05, p value = 0.009, segmental deletion: 1.88 vs. 2.05, p value = 0.003; [Miseq] whole-chromosomal duplication: 2.12 vs. 2.03, p value = 0.047, segmental deletion: 1.82 vs. 2.03, p value = 0.002). The sensitivity and specificity were comparable between the Ion S5 and Miseq ([sensitivity] 93% vs. 90%, p = 0.78; [specificity] 100% vs. 100%, p value = 1.0). In the 107 clinical biopsies, three displayed chaotic patterns (2.8%), which could not be interpreted for the ploidy. The ploidy concordance was 99.04% (103/104) per embryo and 99.47% (2265/2277) per chromosome pair. Since their ability of detection were proven to be similar, the automatic identification in Ion S5 system presents comparatively faster and more standardized performance.