bluuebunny/crossref_metadata_2025 huggingface dataset:
Two complementary model-based methods for calculating the risk of international spreading of a novel virus from the outbreak epicentre. The case of COVID-19
Authors: Massad Eduardo , Amaku Marcos , Wilder-Smith Annelies , Costa dos Santos Paulo Cesar , Struchiner Claudio Jose , Coutinho Francisco Antonio Bezerra
Published: June 2020

We present two complementary model-based methods for calculating the risk of international spread of the novel coronavirus SARS-CoV-2 from the outbreak epicentre. One model aims to calculate the number of cases that would be exported from an endemic country to disease-free regions by travellers. The second model calculates the probability that an infected traveller will generate at least one secondary autochthonous case in the visited country. Although this paper focuses on the data from China, our methods can be adapted to calculate the risk of importation and subsequent outbreaks. We found an average R0 = 5.31 (ranging from 4.08 to 7.91) and a risk of spreading of 0.75 latent individuals per 1000 travellers. In addition, one infective traveller would be able to generate at least one secondary autochthonous case in the visited country with a probability of 23%.
A rare case of primary cardiac Hodgkin lymphoma in a child
Authors: Zoma Justino M. , Aggarwal Sanjeev , Gabali Ali , Kobayashi Daisuke
Published: June 2020

Primary pediatric cardiac tumors are extremely rare. We report a 14-year-old girl with primary cardiac Hodgkin lymphoma. The large right atrial tumor extended upward and occluded the superior caval vein and left innominate vein.
Non-linear analysis of heart rate variability for evaluating the acute effects of caffeinated beverages in young adults
Authors: Caliskan Serife G. , Bilgin Mehmet D.
Published: June 2020

Caffeinated beverages are the most consumed substances in the world. High rate of uptake of these beverages leads to various cardiovascular disorders ranging from palpitations to coronary failure. The objective of the study is to ascertain how the complexity parameters of heart rate variability are affected by acute consumption of caffeinated beverages in young adults.

Electrocardiogram measurements were performed before consuming drinks. After consuming the drinks, measurements were done again at 30 minutes and 60 minutes. Heart rate variability signals were acquired from electrocardiogram signals. Also, the signals were reconstructed in the phase space and largest Lyapunov exponent, correlation dimension, approximate entropy, and detrended fluctuation analysis values were calculated.

Heart rate increased for energy drink and cola groups but not in coffee group. Non-linear parameter values of energy drink, coffee, and cola group are increased within 60 minutes after drink consumption. This change is statistically significant just for energy drink group.

Energy drink consumption increases the complexity of the cardiovascular system in young adults significantly. Coffee and cola consumption have no significant effect on the non-linear parameters of heart rate variability.
Imparting interpretability to word embeddings while preserving semantic structure
Authors: Şenel Lütfi Kerem , Utlu İhsan , Şahinuç Furkan , Ozaktas Haldun M. , Koç Aykut
Published: June 2020

As a ubiquitous method in natural language processing, word embeddings are extensively employed to map semantic properties of words into a dense vector representation. They capture semantic and syntactic relations among words, but the vectors corresponding to the words are only meaningful relative to each other. Neither the vector nor its dimensions have any absolute, interpretable meaning. We introduce an additive modification to the objective function of the embedding learning algorithm that encourages the embedding vectors of words that are semantically related to a predefined concept to take larger values along a specified dimension, while leaving the original semantic learning mechanism mostly unaffected. In other words, we align words that are already determined to be related, along predefined concepts. Therefore, we impart interpretability to the word embedding by assigning meaning to its vector dimensions. The predefined concepts are derived from an external lexical resource, which in this paper is chosen as Roget’s Thesaurus. We observe that alignment along the chosen concepts is not limited to words in the thesaurus and extends to other related words as well. We quantify the extent of interpretability and assignment of meaning from our experimental results. Manual human evaluation results have also been presented to further verify that the proposed method increases interpretability. We also demonstrate the preservation of semantic coherence of the resulting vector space using word-analogy/word-similarity tests and a downstream task. These tests show that the interpretability-imparted word embeddings that are obtained by the proposed framework do not sacrifice performances in common benchmark tests.
Simulation-Trained Sparse Coding for High-Precision Phase Imaging in Low-Dose Electron Holography
Authors: Anada Satoshi , Nomura Yuki , Hirayama Tsukasa , Yamamoto Kazuo
Published: June 2020

We broaden the applicability of sparse coding, a machine learning method, to low-dose electron holography by using simulated holograms for learning and validation processes. The holograms, with shot noise, are prepared to generate a model, or a dictionary, that includes basic features representing interference fringes. The dictionary is applied to sparse representations of other simulated holograms with various signal-to-noise ratios (SNRs). Results demonstrate that this approach successfully removes noise for holograms with an extremely small SNR of 0.10, and that the denoised holograms provide the accurate phase distribution. Furthermore, this study demonstrates that the dictionary learned from the simulated holograms can be applied to denoising of experimental holograms of a p–n junction specimen recorded with different exposure times. The results indicate that the simulation-trained sparse coding is suitable for use over a wide range of imaging conditions, in particular for observing electron beam-sensitive materials.
Evaluation of daily dose accumulation with deformable image registration method using helical tomotherapy images for nasopharyngeal carcinoma
Authors: Thongsuk Warit , Nobnop Wannapha , Chitapanarux Imjai , Wanwilairat Somsak
Published: June 2020

Aim:

Nasopharyngeal carcinoma (NPC) patients may have anatomical variations during their radiotherapy treatment course. In this study, we determine the daily accumulated dose by the deformable image registration (DIR) process for comparing with the planned dose and explore the number of fractions which the daily accumulated dose significantly changed from the planned dose.

Methods:

The validation of the DIR process in MIM software has been tested. One hundred and sixty-five daily megavoltage computed tomography (MVCT) images of NPC patients who were treated by helical tomotherapy were exported to MIM software to determine the daily accumulated dose and then compared with the planned dose.

Results:

The MIM software illustrated the acceptable validation for clinical application. The accumulated dose (D50%) of the planning target volume (PTV70) showed a decrease from the planned dose with an average of 0.5 ± 0.27% at the end of the treatment and was significantly different from the planned dose after the second fraction of the treatment (p-value = 0.008). In contrast, the accumulated dose of organ at risk (OAR) tended to increase from the planned dose and was significantly different after the fifth fraction (left parotid), the twelfth fraction (right parotid) and the second fraction (spinal cord).

Findings:

The inter-fractional anatomic changes cause the actual dose to be different from the planned dose. The dose differences and the number of fractions were varied in each target and OAR. The dose accumulation explored the necessary information for the radiation oncologist to consider adaptive treatment strategies to increase the efficiency of treatment.
Do Voters Prefer Just Any Descriptive Representative? The Case of Multiracial Candidates
Authors: Lemi Danielle Casarez
Published: June 2020

Although scholars of representation have examined variation in voter support conditional on shared demographic traits, we know little about how voters respond to candidates who belong to multiple racial categories. Multiracial candidates challenge how we think about and study representation. I theorize that multiracial categories provide mixed information about how well a candidate adheres to group norms of identity, resulting in a multiracial advantage across groups, but a disadvantage within groups. A conjoint survey experiment on 786 White, Black, Asian, and Hispanic voters and a separate analysis of support for a multiracial candidate in a real-world election support these claims. Thus, multiracial candidates have the advantage of building coalitions with voters from other groups, but they are disadvantaged when appealing to co-racials with strong racial identities. These findings demonstrate that future research on representation must engage multiracial elites.
What are the recovery and attrition outcomes for group CBT and individual CBT for generalised anxiety disorder in an IAPT service? An exploratory study
Authors: Fanous Marianne , Daniels Jo
Published: June 2020

Group cognitive behavioural therapy (gCBT) is commonly used in Increasing Access to Psychological Therapies (IAPT) services. However, there is limited knowledge of the efficacy of gCBT as a delivery format for generalised anxiety disorder (GAD). To address gaps in literature, this study aims to explore the efficacy and attrition of individual and group CBT interventions, respectively, at Step 3 for GAD using data from a routine IAPT service over a 24-month period. Data were retrospectively derived from a routine serviceʼs IAPTus database, separating those eligible for comparison into group (n = 44) and individual (n = 55) CBT for GAD. Outcomes were differences in pre–post self-reported anxiety (GAD-7) and depression (PHQ-9) scores, clinical recovery and attrition for gCBT and individual CBT. Both gCBT and individual CBT yielded significant reductions in self-reported anxiety and depression scores over time. Results indicate that 53% of patients attending individual CBT achieved clinical recovery, with similar but less competitive rates of 41% in gCBT. Attrition rates were similar between gCBT (29.5%) and individual CBT (27.3%), respectively. Preliminary results suggest that both individual and gCBT are effective interventions for GAD patients in IAPT, offering symptom alleviation and comparable recovery and attrition rates post-intervention. This observational design offers credibility and insight into a pragmatic evaluative and explorative comparison. gCBT may offer an acceptable and potentially economical alternative.

Key learning aims

(1)

To explore whether gCBT and individual CBT yield significant symptom reduction in self-reported anxiety and depression in GAD patients from a routine IAPT service.

(2)

To explore gCBT and individual CBT clinical recovery rates in non-optimum routine conditions.

(3)

To explore whether gCBT for GAD produces unacceptable attrition rates and if this differs from attrition rates in individual CBT for GAD in a routine IAPT service.
Efficacy of near-infrared spectroscopy cerebral oximetry on detection of critical cerebral perfusion during carotid endarterectomy under regional anesthesia
Authors: Rocha-Neves João P. , Pereira-Macedo Juliana , Moreira André L. , Oliveira-Pinto José P. , Afonso Graça , Mourão Joana , Andrade José P. , Vaz Ricardo P. , Mansilha Armando
Published: June 2020

Summary: Background: Patients undergoing carotid endarterectomy (CEA) may suffer from cerebral hypoperfusion during the carotid cross-clamping. Near-infrared spectroscopy cerebral oximetry (NIRS) is a non-invasive method of regional cerebral oxygen saturation measurement reflecting changes in cerebral blood flow during CEA. The main goal of the study was to evaluate the accuracy of the NIRS in detecting cerebral hypoperfusion during CEA under regional anesthesia (RA) and compare it with awake neurological testing. Patients and methods: A prospective observational study of 28 patients that underwent CEA in RA and manifested neurologic deficits, and 28 consecutive controls from a tertiary and referral center, was performed. All patients were monitored with NIRS cerebral oximetry and awake testing as the control technique. Subsequently, operating characteristic curve and Cohen’s kappa coefficient were determined to evaluate the reliability of the monitoring test. Results: NIRS presented a sensitivity of 27.3% and a specificity of 89.3% in comparison to awake testing. Receiver operating characteristic (ROC) curve analysis demonstrated that a decrease of at least 20% in cerebral oxygen saturation is the best threshold to infer cerebral hypoperfusion. However, the respective area under the curve (AUROC) was 0.606 (95% CI: 0.456–0.756, P = 0.178) with a calculated Cohen’s kappa of 0.179, P = 0.093. Regarding 30-days outcomes, only awake testing has shown significant associations with stroke and postoperative complications ( P = 0.043 and P = 0.05), which were higher in patients with post-clamping neurologic deficits. Conclusions: NIRS demonstrated a reduced discriminative capacity for critical cerebral hypoperfusion, and does not seem to add substantial clinical benefits to the awake test.
Post‐Wildfire Surface Deformation Near Batagay, Eastern Siberia, Detected by L‐Band and C‐Band InSAR
Authors: Yanagiya Kazuki , Furuya Masato
Published: June 2020

Thawing of ice‐rich permafrost and subsequent ground subsidence can form characteristic landforms, and the resulting topography they create is collectively called “thermokarst.” The impact of wildfire on thermokarst development remains uncertain. Here, we report on the post‐wildfire ground deformation associated with the 2014 wildfire near Batagay, Eastern Siberia. We used Interferometric Synthetic Aperture Radar (InSAR) to generate both long‐term (1–4 years) and short‐term (subseasonal to seasonal) deformation maps. Based on two independent satellite‐based microwave sensors, we could validate the dominance of vertical displacements and their heterogeneous distributions without relying on in situ data. The inferred time series based on L‐band ALOS2 InSAR data indicated that the cumulative subsidence at the area of greatest magnitude was greater than 30 cm from October 2015 to June 2019 and that the rate of subsidence slowed in 2018. The burn severity was rather homogeneous, but the cumulative subsidence magnitude was larger on the east‐facing slopes where the gullies were also predominantly developed. The correlation suggests that the active layer on the east‐facing slopes might have been thinner before the fire. Meanwhile, C‐band Sentinel‐1 InSAR data with higher temporal resolution showed that the temporal evolution included episodic changes in terms of deformation rate. Moreover, we could unambiguously detect frost heave signals that were enhanced within the burned area during the early freezing season but were absent in the mid‐winter. We could reasonably interpret the frost heave signals within a framework of premelting theory instead of assuming a simple freezing and subsequent volume expansion of preexisting pore water.
Ocean Alkalinity, Buffering and Biogeochemical Processes
Authors: Middelburg Jack J. , Soetaert Karline , Hagens Mathilde
Published: June 2020

Alkalinity, the excess of proton acceptors over donors, plays a major role in ocean chemistry, in buffering and in calcium carbonate precipitation and dissolution. Understanding alkalinity dynamics is pivotal to quantify ocean carbon dioxide uptake during times of global change. Here we review ocean alkalinity and its role in ocean buffering as well as the biogeochemical processes governing alkalinity and pH in the ocean. We show that it is important to distinguish between measurable titration alkalinity and charge balance alkalinity that is used to quantify calcification and carbonate dissolution and needed to understand the impact of biogeochemical processes on components of the carbon dioxide system. A general treatment of ocean buffering and quantification via sensitivity factors is presented and used to link existing buffer and sensitivity factors. The impact of individual biogeochemical processes on ocean alkalinity and pH is discussed and quantified using these sensitivity factors. Processes governing ocean alkalinity on longer time scales such as carbonate compensation, (reversed) silicate weathering, and anaerobic mineralization are discussed and used to derive a close‐to‐balance ocean alkalinity budget for the modern ocean.
Multisite Weather Generators Using Bayesian Networks: An Illustrative Case Study for Precipitation Occurrence
Authors: Legasa M. N. , Gutiérrez J. M.
Published: June 2020

Many existing approaches for multisite weather generation try to capture several statistics of the observed data (such as pairwise correlations) in order to generate spatially and temporarily consistent series. In this work, we analyze the application of Bayesian networks to this problem, focusing on precipitation occurrence and considering a simple case study to illustrate the potential of this new approach. We use Bayesian networks to approximate the multivariate (multisite) probability distribution of observed gauge data, which is factorized according to the relevant (marginal and conditional) dependencies. This factorization allows the simulation of synthetic samples from the multivariate distribution, thus providing a sound and promising methodology for multisite precipitation series generation.
Geomagnetic Activity Control of Irregularities Occurrences Over the Crests of the African EIA
Authors: Amaechi P. O. , Oyeyemi E. O. , Akala A. O. , Amory‐Mazaudier C.
Published: June 2020

This paper investigated the behavior of ionospheric irregularities over the African equatorial ionization anomaly (EIA) crests during intense geomagnetic storms that occurred from 2012 to 2015. Irregularities were monitored using the rate of change of TEC index along with variations of the horizontal component of the Earth's magnetic field (H) and ionospheric electric current disturbance (Diono). The predictive capability of the Prompt Penetration Equatorial Electric Field Model (PPEFM) was assessed by comparing prompt penetration electric field (PPEF) inferred from interplanetary electric field and Diono with PPEF derived from the PPEFM, with emphasis on how well the model reproduced enhancement/reduction in the prereversal enhancement (PRE). Eastward PPEF triggered short duration irregularities on 23 April 2012, 17 March 2013, and 20 February 2014 while westward electric field reduced them thereafter. The PPEFM rightly predicted enhancement (reduction) in PRE on 17 March 2013 (19 February 2014) when irregularities were triggered (inhibited). It, however, showed no change in the PRE on 23 April 2012 and 20 February 2014. During the storms recoveries, irregularities were always inhibited/reduced over the trough by westward disturbance dynamo and the inhibition lasted longer during the superstorm of March 2015. Also, there was a hemispheric asymmetry in irregularities over the African EIA crests. On 16–17 July 2012, 15 November 2012, and 19 March 2013, there were differences in irregularities behavior. On these days, the asymmetry of the postsunset crests was pronounced in both hemispheres.
Equilibrium Temperatures and Directional Emissivity of Sunlit Airless Surfaces With Applications to the Moon
Authors: Rubanenko L. , Schorghofer N. , Greenhagen B. T. , Paige D. A.
Published: June 2020

Solar irradiance dominates the heat flux incident on airless planetary bodies. In thermal equilibrium, surface roughness affects the temperature distribution by changing the incidence angle local to each slope. In order to simulate temperatures and thermal emissions at different phase angles, existing thermophysical models usually employ computationally expensive techniques such as ray tracing. Here we derive the equilibrium surface temperature distribution of sunlit Gaussian rough surfaces, providing an exact solution for the Sun at the zenith and an approximate solution for the general case. We find that although the slope distribution of realistic airless surfaces is often non‐Gaussian, their temperature distribution is well modeled assuming a Gaussian slope distribution. We additionally present closed‐form expressions that describe the radiation emitted from rough surfaces at different emissions angles and employ them to radiometrically estimate the roughness of the lunar surface using measurements obtained by Lunar Reconnaissance Orbiter (LRO) Diviner. Our model may also be applied to studying the roughness of resolved and unresolved surfaces on other airless planetary bodies.
Consumption of a high energy density diet triggers microbiota dysbiosis, hepatic lipidosis, and microglia activation in the nucleus of the solitary tract in rats
Authors: Minaya Dulce M. , Turlej Anna , Joshi Abhinav , Nagy Tamas , Weinstein Noah , DiLorenzo Patricia , Hajnal Andras , Czaja Krzysztof
Published: June 2020

Introduction

Obesity is a multifactorial chronic inflammatory disease. Consumption of high energy density (HED) diets is associated with hyperphagia, increased body weight and body fat accumulation, and obesity. Our lab has previously shown that short-term (4 weeks) consumption of a HED diet triggers gut microbiota dysbiosis, gut inflammation, and reorganization of the gut-brain vagal communication.

Objetives

The aim of this study was to investigate the effect of long-term (6 months) consumption of HED diet on body composition, gut microbiome, hepatocellular lipidosis, microglia activation in the nucleus of the solitary tract, and systemic inflammation.

Methods

Male Sprague–Dawley rats were fed a low energy density (LED) diet for 2 weeks and then switched to a HED diet for 26 weeks. Twenty-four-hour food intake, body weight, and body composition were measured twice a week. Blood serum and fecal samples were collected at baseline, 1, 4, 8, and 26 weeks after introduction of the HED diet. Serum samples were used to measure insulin, leptin, and inflammatory cytokines using Enzyme-linked Immunosorbent Assay. Fecal samples were assessed for 16 S rRNA genome sequencing.

Results

HED diet induced microbiota dysbiosis within a week of introducing the diet. In addition, there was significant microglia activation in the intermediate NTS and marked hepatic lipidosis after 4 weeks of HED diet. We further observed changes in the serum cytokine profile after 26 weeks of HED feeding.

Conclusions

These data suggest that microbiota dysbiosis is the first response of the organism to HED diets, followed by increased liver fat accumulation, microglia activation in the brain, and circulating levels of inflammatory markers. To our knowledge, this is the first study to present longitudinal and cross-sectional results on effect of long-term consumption of HED diets on all these parameters in a single cohort of animals.
A key role of the subdiaphragmatic vagus nerve in the depression-like phenotype and abnormal composition of gut microbiota in mice after lipopolysaccharide administration
Authors: Zhang Jiancheng , Ma Li , Chang Lijia , Pu Yaoyu , Qu Youge , Hashimoto Kenji
Published: June 2020

The vagus nerve plays a role in the cross talk between the brain and gut microbiota, which could be involved in depression. The subdiaphragmatic vagus nerve serves as a major modulatory pathway between the brain and gut microbiota. Here, we investigated the effects of subdiaphragmatic vagotomy (SDV) on the depression-like phenotype and the abnormal composition of gut microbiota in mice after lipopolysaccharide (LPS) administration. LPS caused a depression-like phenotype, inflammation, increase in spleen weight, and downregulation of synaptic proteins in the medial prefrontal cortex (mPFC) in the sham-operated mice. In contrast, LPS did not produce a depression-like phenotype and downregulated synaptic proteins in the mPFC after SDV. The spleen weight and plasma levels of pro-inflammatory cytokines in the SDV + LPS group were lower than those of the sham + LPS group. Interestingly, there were positive correlations between the plasma levels of pro-inflammatory cytokines and spleen weight, suggesting a relationship between inflammatory events and spleen weight. Furthermore, LPS led to significant alterations in gut microbiota diversity in sham-operated mice, but not SDV-operated mice. In an unweighted UniFrac PCoA, the dots representing the sham + LPS group were located far away from the dots representing the other three groups. Our results suggest that LPS produces a depression-like phenotype, increases spleen weight, triggers inflammation, downregulates synaptic proteins in the mPFC, and leads to abnormal composition of gut microbiota via the subdiaphragmatic vagus nerve. It is likely that the vagus nerve plays a crucial role in the brain–gut–microbiota axis.
Prophylactic effect of flavanol rich preparation metabolites in promoting resilience to a mouse model of social stress
Authors: Wang Jun , Zhao Danyue , Tiano Simoni , Esteban-Fernández Adelaida , Yuan Bo , Smith Chad , Brathwaite Justin , Jlayer Zahra , Wu Qingli , Simon James E. , Trageser Kyle J. , Pasinetti Giulio M.
Published: June 2020

Major depressive disorder (MDD) is a leading cause of disability, and there is an urgent need for new therapeutics. Stress-mediated induction of pro-inflammation in the periphery contributes to depression-like behaviors both in humans and in experimental models. Inflammatory cytokine interleukin-6 (IL-6) has emerged as a potential therapeutic target. Our studies demonstrated that metabolism of flavanol rich cocoa preparation (FRP) led to the accumulation of select phenolic acids that may contribute to its anti-inflammatory activity. Using a repeated social defeat stress (RSDS) model of depression, we showed that oral administration of FRP attenuates susceptibility to RSDS-mediated depression, supporting the further development of FRP as a novel therapeutic for the treatment of stress disorders and anxiety in humans.
Stereospecific Si-C coupling and remote control of axial chirality by enantioselective palladium-catalyzed hydrosilylation of maleimides
Authors: Gu Xing-Wei , Sun Yu-Li , Xie Jia-Le , Wang Xing-Ben , Xu Zheng , Yin Guan-Wu , Li Li , Yang Ke-Fang , Xu Li-Wen
Published: June 2020

Hydrosilylation of unsaturated carbon-carbon bonds with hydrosilanes is a very important process to access organosilicon compounds and ranks as one of the most fundamental reactions in organic chemistry. However, catalytic asymmetric hydrosilylation of activated alkenes and internal alkenes has proven elusive, due to competing reduction of carbon-carbon double bond or isomerization processes. Herein, we report a highly enantioselective Si-C coupling by hydrosilylation of carbonyl-activated alkenes using a palladium catalyst with a chiral TADDOL-derived phosphoramidite ligand, which inhibits O-hydrosilylation/olefin reduction. The stereospecific Si-C coupling/hydrosilylation of maleimides affords a series of silyl succinimides with up to 99% yield, >99:1 diastereoselectivity and >99:1 enantioselectivity. The high degree of stereoselectivity exerts remote control of axial chirality, leading to functionalized, axially chiral succinimides which are versatile building blocks. The product utility is highlighted by the enantioselective construction of N-heterocycles bearing up to three stereocenters.
Malaria vaccines since 2000: progress, priorities, products
Authors: Duffy Patrick E. , Patrick Gorres J.
Published: June 2020

Malaria vaccine development entered a new era in 2015 when the pre-erythrocytic Plasmodium falciparum candidate RTS,S was favorably reviewed by the European Medicines Agency and subsequently introduced into national pilot implementation programs, marking the first human anti-parasite vaccine to pass regulatory scrutiny. Since the first trials published in 1997, RTS,S has been evaluated in a series of clinical trials culminating in Phase 3 testing, while testing of other pre-erythrocytic candidates (that target sporozoite- or liver-stage parasites), particularly whole sporozoite vaccines, has also increased. Interest in blood-stage candidates (that limit blood-stage parasite growth) subsided after disappointing human efficacy results, although new blood-stage targets and concepts may revive activity in this area. Over the past decade, testing of transmission-blocking vaccines (that kill mosquito/sexual-stage parasites) advanced to field trials and the first generation of placental malaria vaccines (that clear placenta-sequestering parasites) entered the clinic. Novel antigen discovery, human monoclonal antibodies, structural vaccinology, and improved platforms promise to expand on RTS,S and improve existing vaccine candidates.
Safely managed drinking water services in the Democratic People’s Republic of Korea: findings from the 2017 Multiple Indicator Cluster Survey
Authors: Dorea Caetano C. , Karaulac Tatjana , Namgyal Kencho , Bain Rob , Slaymaker Tom , Johnston Richard
Published: June 2020

Safely managed drinking water services (SMDWS) is the service ladder used for the Sustainable Development Goal (SDG) monitoring of drinking water and expands on the Millennium Development Goal metric (“improved water source”) with three additional criteria, namely: availability when needed, accessibility on premises, and safety (free from faecal and priority chemical contamination). Multiple Indicator Cluster Surveys (MICS) have been used for progress monitoring accounting for a significant fraction of the water, sanitation, and hygiene (WASH) indicator data. In its most recent iteration MICS now includes additional SMDWS indicators. The objective of this study was to report on recent SDG target 6.1 baseline data on SMDWS from the Democratic People’s Republic of Korea gathered from a MICS conducted in 2017. Survey results indicated that 93.7% of the population used an improved drinking water source, but when this was combined with the SDG criteria of water availability, accessibility, and safety, coverage was reduced to 92.3, 78.2, and 74.4%, respectively. This resulted in estimates that 60.9% of the population used a SMDWS. The survey results illustrate how the improved SDG indicators can highlight the required gaps to be overcome with regard to universal and equitable access to SMDWS. Further analysis and discussion regarding water quality deterioration between source and household as well as population residence, wealth group index, geographical distribution, and other characteristics relative to SMDWS indicators are also further analysed and discussed.
The propensity for re-triggered predation fear in a prey fish
Authors: Crane Adam L. , Feyten Laurence E. A. , Ramnarine Indar W. , Brown Grant E.
Published: June 2020

Variation in predation risk can drive variation in fear intensity, the length of fear retention, and whether fear returns after waning. Using Trinidadian guppies, we assessed whether a low-level predation threat could easily re-trigger fear after waning. First, we show that background risk induced neophobia after either multiple exposures to a low-level threat or a single exposure to a high-level threat. However, a single exposure to the low-level threat had no such effect. The individuals that received multiple background exposures to the low-level threat retained their neophobic phenotype over an 8-day post-risk period, and this response was intensified by a single re-exposure to the low-level threat on day 7. In contrast, the neophobia following the single high-level threat waned over the 8-day period, but the single re-exposure to the low-level threat on day 7 re-triggered the neophobic phenotype. Thus, despite the single low-level exposure being insufficient to induce neophobia, it significantly elevated existing fear and re-triggered fear that had waned. We highlight how such patterns of fear acquisition, retention, and rapid re-triggering play an important role in animal ecology and evolution and outline parallels between the neophobic phenotype in fishes and dimensions of post-traumatic stress in humans.
Late Pleistocene-Holocene vegetation history and anthropogenic activities deduced from pollen spectra and archaeological data at Guxu Lake, eastern China
Authors: Qiu Zhenwei , Jiang Hongen , Ding Lanlan , Shang Xue
Published: June 2020

This study presents high-resolution pollen and charcoal records from Guxu Lake in the Taihu Lake Basin, eastern China, spanning the last 23,000 years. The sedimentary sequences revealed dynamic terrestrial and lacustrine environments during 23.0-11.7 cal ka BP, the climate was relatively cold and dry, and the vegetation was dominated by evergreen-deciduous broadleaf and coniferous mixed forest. During 11.7-4.4 cal ka BP, the Quercus- and Castanopsis-dominated evergreen-deciduous broadleaf mixed forest expanded, while the Poaceae and Artemisia were still the major terrestrial herbs under warmer and more humid conditions. After this period, the climate became relatively cool and dry again, and the vegetation landscape was comparatively stable, as it remains today. Wild rice likely grew before Neolithic humans occupied this area. The variations in Oryza-type Poaceae pollen spectra and distributions of Neolithic archaeological sites indicate rice agriculture may have first appeared and developed with human occupation in ca. 7.0-4.4 ka BP. During the historical period, beginning approximately 4 ka BP, a clear signal of intensified anthropogenic disturbance is evident from the clearing of forests, high charcoal concentrations and the presence of rice pollen in large quantities. These results suggest more intensified rice farming was widespread, with increasing human impact on the environment.
Cell type specific adhesion to surfaces functionalised by amine plasma polymers
Authors: Černochová P. , Blahová L. , Medalová J. , Nečas D. , Michlíček M. , Kaushik P. , Přibyl J. , Bartošíková J. , Manakhov A. , Bačáková L. , Zajíčková L.
Published: June 2020

Our previously-obtained impressive results of highly increased C2C12 mouse myoblast adhesion to amine plasma polymers (PPs) motivated current detailed studies of cell resistance to trypsinization, cell proliferation, motility, and the rate of attachment carried out for fibroblasts (LF), keratinocytes (HaCaT), rat vascular smooth muscle cells (VSMC), and endothelial cells (HUVEC, HSVEC, and CPAE) on three different amine PPs. We demonstrated the striking difference in the resistance to trypsin treatment between endothelial and non-endothelial cells. The increased resistance observed for the non-endothelial cell types was accompanied by an increased rate of cellular attachment, even though spontaneous migration was comparable to the control, i.e., to the standard cultivation surface. As demonstrated on LF fibroblasts, the resistance to trypsin was similar in serum-supplemented and serum-free media, i.e., medium without cell adhesion-mediating proteins. The increased cell adhesion was also confirmed for LF cells by an independent technique, single-cell force spectroscopy. This method, as well as the cell attachment rate, proved the difference among the plasma polymers with different amounts of amine groups, but other investigated techniques could not reveal the differences in the cell behaviour on different amine PPs. Based on all the results, the increased resistance to trypsinization of C2C12, LF, HaCaT, and VSMC cells on amine PPs can be explained most probably by a non-specific cell adhesion such as electrostatic interaction between the cells and amine groups on the material surface, rather than by the receptor-mediated adhesion through serum-derived proteins adsorbed on the PPs.
Lung Function and Gene Expression of Pathogen Recognition Pathway Receptors: the Cardia Lung Study
Authors: Ramasubramanian Ramya , Kalhan Ravi , Jacobs David R. , Washko George R. , Hou Lifang , Gross Myron D. , Guan Weihua , Thyagarajan Bharat
Published: June 2020

Activation of toll-like receptors (TLR1, TLR5, TLR6) and downstream markers (CCR1, MAPK14, ICAM1) leads to increased systemic inflammation. Our objective was to study the association between the gene expression levels of these six genes and lung function (Forced Expiratory Volume in one second (FEV1), Forced Vital Capacity (FVC) and FEV1/FVC). We studied gene expression levels and lung function in the Coronary Artery Risk Development in Young Adults study. Spirometry testing was used to measure lung function and gene expression levels were measured using the Nanostring platform. Multivariate linear regression models were used to study the association between lung function measured at year 30, 10-year decline from year 20 to year 30, and gene expression levels (highest quartile divided into two levels – 75th to 95th and>95th to 100th percentile) adjusting for center, smoking and BMI, measured at year 25. Year 30 FEV1 and FVC were lower in the highest level of TLR5 compared to the lowest quartile with difference of 4.00% (p for trend: 0.04) and 3.90% (p for trend: 0.05), respectively. The 10-year decline of FEV1 was faster in the highest level of CCR1 as compared to the lowest quartile with a difference of 1.69% (p for trend: 0.01). There was no association between gene expression and FEV1/FVC. Higher gene expression levels in TLR5 and CCR1 are associated with lower lung function and faster decline in FEV1 over 10 years, in a threshold manner, providing new insights into the role of inflammation in lung function.
Selection of the optimal intensity normalization region for FDG-PET studies of normal aging and Alzheimer’s disease
Authors: Nugent Scott , Croteau Etienne , Potvin Olivier , Castellano Christian-Alexandre , Dieumegarde Louis , Cunnane Stephen C. , Duchesne Simon
Published: June 2020

The primary method for measuring brain metabolism in humans is positron emission tomography (PET) imaging using the tracer 18F-fluorodeoxyglucose (FDG). Standardized uptake value ratios (SUVR) are commonly calculated from FDG-PET images to examine intra- and inter-subject effects. Various reference regions are used in the literature of FDG-PET studies of normal aging, making comparison between studies difficult. Our primary objective was to determine the optimal SUVR reference region in the context of healthy aging, using partial volume effect (PVE) and non-PVE corrected data. We calculated quantitative cerebral metabolic rates of glucose (CMRg) from PVE-corrected and non-corrected images from young and older adults. We also investigated regional atrophy using magnetic resonance (MR) images. FreeSurfer 6.0 atlases were used to explore possible reference regions of interest (ROI). Multiple regression was used to predict CMRg data, in each FreeSurfer ROI, with age and sex as predictors. Age had the least effect in predicting CMRg for PVE corrected data in the pons (r2 = 2.83 × 10−3, p = 0.67). For non-PVE corrected data age also had the least effect in predicting CMRg in the pons (r2 = 3.12 × 10−3, p = 0.67). We compared the effects of using the whole brain or the pons as a reference region in PVE corrected data in two regions susceptible to hypometabolism in Alzheimer’s disease, the posterior cingulate and precuneus. Using the whole brain as a reference region resulted in non-significant group differences in the posterior cingulate while there were significant differences between all three groups in the precuneus (all p < 0.004). When using the pons as a reference region there was significant differences between all groups for both the posterior cingulate and the precuneus (all p < 0.001). Therefore, the use of the pons as a reference region is more sensitive to hypometabism changes associated with Alzheimer’s disease than the whole brain.
BacEffluxPred: A two-tier system to predict and categorize bacterial efflux mediated antibiotic resistance proteins
Authors: Pandey Deeksha , Kumari Bandana , Singhal Neelja , Kumar Manish
Published: June 2020

Efflux proteins are transport proteins, which are involved in transporting different substrates from the cell to the external environment, including antibiotics. The efflux mechanism and efflux pumps are a major reason underlying emerging rampant antibiotic resistance (AR) in microbes. To reduce the resources required and time of identification, characterization and classification of bacterial efflux proteins, we have developed a fast and accurate support vector machine based two-tier prediction system, BacEffluxPred, which can predict bacterial efflux proteins responsible for AR and identify their corresponding families. A leave-one-out cross-validation also called jackknife procedure was used for performance evaluation. The accuracy to discriminate bacterial AR efflux from non-AR efflux was obtained as 85.81% (at tier-I) while accuracies for prediction of efflux pump families like ABC, MFS, RND and MATE family were found 92.13%, 85.39%, 91.01% and 99.44%, respectively (at tier-II). Benchmarking on an independent dataset also showed that BacEffluxPred had comparable accuracy for prediction of bacterial AR efflux pumps and their families. This is the first in-silico tool for predicting bacterial AR efflux proteins and their families and is freely available as both web-server and standalone versions at http://proteininformatics.org/mkumar/baceffluxpred/.
Sward type alters the relative abundance of members of the rumen microbial ecosystem in dairy cows
Authors: Smith Paul E. , Enriquez-Hidalgo Daniel , Hennessy Deirdre , McCabe Matthew S. , Kenny David A. , Kelly Alan K. , Waters Sinéad M.
Published: June 2020

The performance of ruminant livestock has been shown to benefit from the enhanced nutritive value and herbage yield associated with clover incorporation in the grazing sward. However, little research to date has been conducted investigating the effects of mixed swards containing white clover on the composition of the rumen microbiome. In this study, the rumen microbial composition of late lactation dairy cows grazing perennial ryegrass only (PRG; n = 20) or perennial ryegrass and white clover (WCPRG; n = 19) swards, was characterised using 16S rRNA amplicon sequencing. PERMANOVA analysis indicated diet significantly altered the composition of the rumen microbiome (P = 0.024). Subtle shifts in the relative abundance of 14 bacterial genera were apparent between diets, including an increased relative abundance of Lachnospira (0.04 vs. 0.23%) and Pseudobutyrivibrio (1.38 vs. 0.81%) in the WCPRG and PRG groups, respectively. The composition of the archaeal community was altered between dietary groups, with a minor increase in the relative abundance of Methanosphaera in the WCPRG observed. Results from this study highlight the potential for sward type to influence the composition of the rumen microbial community.
Comparison of Accuracy of Arrival-Time-Insensitive and Arrival-Time-Sensitive CTP Algorithms for Prediction of Infarct Tissue Volumes
Authors: Pennig Lenhard , Thiele Frank , Goertz Lukas , Laukamp Kai Roman , Perkuhn Michael , Kabbasch Christoph , Schlamann Marc , Fink Gereon Rudolf , Borggrefe Jan
Published: June 2020

The purpose of this study was to compare the performance of arrival-time-insensitive (ATI) and arrival-time-sensitive (ATS) computed tomography perfusion (CTP) algorithms in Philips IntelliSpace Portal (v9, ISP) and to investigate optimal thresholds for ATI regarding the prediction of final infarct volume (FIV). Retrospective, single-center study with 54 patients (mean 67.0 ± 13.1 years, 68.5% male) who received Stroke-CT/CTP-imaging between 2010 and 2018 with occlusion of the middle cerebral artery in the M1-/proximal M2-segment or terminal internal carotid artery. FIV was determined on short-term follow-up imaging in two patient groups: A) not attempted or failed mechanical thrombectomy (MT) and B) successful MT. ATS (default settings) and ATI (full-range of threshold settings regarding FIV prediction) maps were coregistered in 3D with FIV using voxel-wise overlap measurement. Based on an average imaging follow-up of 2.6 ± 2.1 days, the estimation regarding penumbra (group A, ATI: r = 0.63/0.69, ATS: r = 0.64) and infarct core (group B, ATI: r = 0.60/0.68, ATS: r = 0.63) was slightly higher in ATI but the effect was not significant (p > 0.05). Regarding ATI, Tmax (AUC 0.9) was the best estimator of the penumbra (group A), CBF relative to the contralateral hemisphere (AUC 0.80) showed the best estimation of the infarct core (group B). There was a broad range of thresholds of optimal ATI settings in both groups. Prediction of FIV with ATI was slightly better compared to ATS. However, this difference was not significant. Since ATI showed a broad range of optimal thresholds, exact thresholds regarding the ATI algorithm should be evaluated in further prospective, clinical studies.
Tonic NMDA receptor signalling shapes endosomal organisation in mammalian cells
Authors: Glebov Oleg O.
Published: June 2020

Calcium signalling through NMDA-type glutamate receptors (NMDARs) plays a key role in synaptic plasticity in the central nervous system (CNS). NMDAR expression has also been detected in other tissues and aberrant glutamate signalling has been linked to cancer; however, the significance of NMDAR function outside of the CNS remains unclear. Here, I show that removal of extracellular calcium rapidly decreases the size of early endosomes in primary human fibroblasts. This effect can be mimicked by blockade of NMDA-type glutamate receptors but not voltage-gated calcium channels (VGCCs), and can also be observed in primary hippocampal neurons and Jurkat T cells. Conversely, in a breast cancer cell line MDA-MB-231 NMDAR blockade results in an increase in endosomal size and decrease in number. These findings reveal that calcium signalling via glutamate receptors controls the structure of the endosomal system and suggest that aberrations in NMDAR-regulated membrane trafficking may be associated with cancer.
Donor bone-marrow CXCR4+ Foxp3+ T-regulatory cells are essential for costimulation blockade-induced long-term survival of murine limb transplants
Authors: Wang Liqing , Wang Zhonglin , Han Rongxiang , Samanta Arabinda , Ge Guanghui , Levin L. Scott , Levine Matthew H. , Hancock Wayne W.
Published: June 2020

Vascularized composite allotransplantation (VCA) allows tissue replacement after devastating loss but is currently limited in application and may be more widely performed if maintenance immunosuppression was not essential for graft acceptance. We tested whether peri-transplant costimulation blockade could prolong VCA survival and required donor bone-marrow cells, given that bone-marrow might promote graft immunogenicity or graft-versus-host disease. Peritransplant CD154 mAb/rapamycin (RPM) induced long-term orthotopic hindlimb VCA survival (BALB/c->C57BL/6), as did CTLA4Ig/RPM. Surprisingly, success of either protocol required a bone-marrow-associated, radiation-sensitive cell population, since long-bone removal or pre-transplant donor irradiation prevented long-term engraftment. Rejection also occurred if Rag1−/− donors were used, or if donors were treated with a CXCR4 inhibitor to mobilize donor BM cells pre-transplant. Donor bone-marrow contained a large population of Foxp3+ T-regulatory (Treg) cells, and donor Foxp3+ Treg depletion, by diphtheria toxin administration to DEREG donor mice whose Foxp3+ Treg cells expressed diphtheria toxin receptor, restored rejection with either protocol. Rejection also occurred if CXCR4 was deleted from donor Tregs pre-transplant. Hence, long-term VCA survival is possible across a full MHC disparity using peritransplant costimulation blockade-based approaches, but unexpectedly, the efficacy of costimulation blockade requires the presence of a radiation-sensitive, CXCR4+ Foxp3+ Treg population resident within donor BM.