bluuebunny/crossref_metadata_2025_split huggingface dataset:
Photoacoustic imaging of voltage responses beyond the optical diffusion limit
Authors: Rao Bin , Zhang Ruiying , Li Lei , Shao Jin-Yu , Wang Lihong V. 
Published: May 2017

AbstractNon-invasive optical imaging of neuronal voltage response signals in live brains is constrained in depth by the optical diffusion limit, which is due primarily to optical scattering by brain tissues. Although photoacoustic tomography breaks this limit by exciting the targets with diffused photons and detecting the resulting acoustic responses, it has not been demonstrated as a modality for imaging voltage responses. In this communication, we report the first demonstration of photoacoustic voltage response imaging in both in vitro HEK-293 cell cultures and in vivo mouse brain surfaces. Using spectroscopic photoacoustic tomography at isosbestic wavelengths, we can separate voltage response signals and hemodynamic signals on live brain surfaces. By imaging HEK-293 cell clusters through 4.5 mm thick ex vivo rat brain tissue, we demonstrate photoacoustic tomography of cell membrane voltage responses beyond the optical diffusion limit. Although the current voltage dye does not immediately allow in vivo deep brain voltage response imaging, we believe our method opens up a feasible technical path for deep brain studies in the future.
FastGT: an alignment-free method for calling common SNVs directly from raw sequencing reads
Authors: Pajuste Fanny-Dhelia , Kaplinski Lauris , Möls Märt , Puurand Tarmo , Lepamets Maarja , Remm Maido 
Published: May 2017

AbstractWe have developed a computational method that counts the frequencies of unique k-mers in FASTQ-formatted genome data and uses this information to infer the genotypes of known variants. FastGT can detect the variants in a 30x genome in less than 1 hour using ordinary low-cost server hardware. The overall concordance with the genotypes of two Illumina “Platinum” genomes is 99.96%, and the concordance with the genotypes of the Illumina HumanOmniExpress is 99.82%. Our method provides k-mer database that can be used for the simultaneous genotyping of approximately 30 million single nucleotide variants (SNVs), including >23,000 SNVs from Y chromosome. The source code of FastGT software is available at GitHub (https://github.com/bioinfo-ut/GenomeTester4/).
Low-field electron mobility of InSb nanowires: Numerical efforts to larger cross sections
Authors: Feng Wei , Peng Chen , Li Shuang , Li Xin-Qi 
Published: May 2017

AbstractWithin the framework of Boltzmann equation, we present a k · p theory based study for the low-field mobilities of InSb nanowires (InSb NWs) with relatively large cross sectional sizes (with diameters up to 51.8 nm). For such type of large size nanowires, the intersubband electron-phonon scattering is of crucial importance to affect the scattering rate and then the mobility. In our simulation, the lowest 15 electron subbands and 50 transverse modes of phonons are carefully accounted for. We find that, up to the 51.84 nm diameter, the mobility monotonously increases with the diameter, not yet showing any saturated behavior. We also find that, while the bulk InSb mobility is considerably higher than the bulk Si, the small size (e.g. ~3 nm diameter) nanowires from both materials have similar magnitude of mobilities. This implies, importantly, that the mobility of the InSb NWs would decrease faster than the SiNWs as we reduce the cross sectional size of the nanowires.
Association of body mass index with mortality and functional outcome after acute ischemic stroke
Authors: Sun Weiping , Huang Yining , Xian Ying , Zhu Sainan , Jia Zhirong , Liu Ran , Li Fan , Wei Jade W. , Wang Ji-Guang , Liu Ming , Anderson Craig S. 
Published: May 2017

AbstractThe relation between obesity and stroke outcome has been disputed. This study was aimed to determine the association of body mass index (BMI) with mortality and functional outcome in patients with acute ischemic stroke. Data were from a national, multi-centre, prospective, hospital-based register: the ChinaQUEST (Quality Evaluation of Stroke Care and Treatment) study. Of 4782 acute ischemic stroke patients, 282 were underweight (BMI < 18.5 kg/m2), 2306 were normal-weight (BMI 18.5 to < 24 kg/m2), 1677 were overweight (BMI 24 to <28 kg/m2) and 517 were obese (BMI ≥ 28 kg/m2). The risks of death at 12 months and death or high dependency at 3 and 12 months in overweight (HR: 0.97, 95% CI: 0.78–1.20; OR: 0.93, 95% CI: 0.80–1.09; OR: 0.95, 95% CI: 0.81–1.12) and obese patients (HR: 1.07, 95% CI: 0.78–1.48; OR: 0.96, 95% CI: 0.75–1.22; OR: 1.06, 95% CI: 0.83–1.35) did not differ from normal-weight patients significantly after adjusting for baseline characteristics. Underweight patients had significantly increased risks of these three outcomes. In ischemic stroke patients, being overweight or obese was not associated with decreased mortality or better functional recovery but being underweight predicted unfavourable outcomes.
Analysis of soil water movement inside a footslope and a depression in a karst catchment, Southwest China
Authors: Chen Hongsong , Hu Ke , Nie Yunpeng , Wang Kelin 
Published: May 2017

AbstractSoil water movement is difficult to explain with event-scale approaches, especially in karst regions. This paper focuses on investigating seasonal recharge and mean residence time (MRT) of soil water based on temporal variation of stable isotopes (δD and δ18O) and a dispersion model (DM), and discussing their differences along a footslope and a depression in a small karst catchment of southwest China. Temporal variations of the stable isotopes in precipitation and soil water within 0–100 cm profiles were monitored weekly for approximately 43 and 99 weeks. Results show that the seasonal recharge of soil water inside the footslope and the depression were similar, but the vertical flow velocity was higher implying a faster hydrological process in the footslope. The MRT of soil water (2–64 weeks) increased roughly, suggesting decreasing velocity of water displacement with increasing depth. However, the MRT at 60–100 cm depths in the depression (47–64 weeks) was obviously longer than at other sites, revealing more intensive water mixing. Furthermore, a shallower isotopic damping depth was found in the depression, indicating stronger delay and attenuation effects on base flow recharge. These results provide new insights into research on hydrological processes in karst areas.
Monitoring ZEO apoptotic potential in 2D and 3D cell cultures and associated spectroscopic evidence on mode of interaction with DNA
Authors: Salehi Fahimeh , Behboudi Hossein , Kavoosi Gholamreza , Ardestani Sussan K. 
Published: May 2017

AbstractRecognizing new anticancer compounds to improve Breast cancer treatment seems crucial. Essential oil of Zataria Multiflora (ZEO) is a secondary metabolite with some biological properties, yet underlying cellular and molecular anticancer properties of ZEO is unclear. GC/MS analysis revealed that carvacrol is the major ingredient of the essential oil. ZEO increasingly suppressed viability in MDA-MB-231, MCF-7 and T47D Breast cancer cells while nontoxic to L929 normal cells in monolayer cell cultures (2D), whereas MDA-MB-231 multicellular spheroids (3D) were more resistant to inhibition. ZEO significantly induced cell apoptosis confirmed by fluorescent staining, flow cytometry analysis and DNA fragmentation in MDA-MB-231 2D and 3D cell cultures. ZEO increased ROS generation and subsequent loss of ΔΨm, caspase 3 activation and DNA damage which consequently caused G1 and G2/M cell cycle arrest in a dose- and time-dependent manner in 2D. S phase arrest occurred in cell spheroids therefore ZEO possible DNA interaction with gDNA was investigated and revealed ZEO binds DNA via intercalation. Altogether, these data corroborate anticancer properties of ZEO and suggest that cell culture format (2D monolayer vs. 3D spheroid) plays a critical role in drug response and provides new insights into the mechanisms underlying ZEO cytotoxicity effect on Breast cancer cells.
Dibutyl phthalate induced testicular dysgenesis originates after seminiferous cord formation in rats
Authors: Lara Nathália L. M. , van den Driesche Sander , Macpherson Sheila , França Luiz R. , Sharpe Richard M. 
Published: May 2017

AbstractAdministration of dibutyl phthalate (DBP) to pregnant rats causes reproductive disorders in male offspring, resulting from suppression of intratesticular testosterone, and is used as a model for human testicular dysgenesis syndrome (TDS). DBP exposure in pregnancy induces focal dysgenetic areas in fetal testes that appear between e19.5–e21.5, manifesting as focal aggregation of Leydig cells and ectopic Sertoli cells (SC). Our aim was to identify the origins of the ectopic SC. Time-mated female rats were administered 750 mg/kg/day DBP in three different time windows: full window (FW; e13.5–e20.5), masculinisation programming window (MPW; e15.5–e18.5), late window (LW; e19.5–e20.5). We show that DBP-MPW treatment produces more extensive and severe dysgenetic areas, with more ectopic SC and germ cells (GC) than DBP-FW treatment; DBP-LW induces no dysgenesis. Our findings demonstrate that ectopic SC do not differentiate de novo, but result from rupture of normally formed seminiferous cords beyond e20.5. The more severe testis dysgenesis in DBP-MPW animals may result from the presence of basally migrating GC and a weakened basal lamina, whereas GC migration was minimal in DBP-FW animals. Our findings provide the first evidence for how testicular dysgenesis can result after normal testis differentiation/development and may be relevant to understanding TDS in human patients.
Evaluation of riparian condition of Songhua River by integration of remote sensing and field measurements
Authors: Fu Bolin , Li Ying , Wang Yeqiao , Campbell Anthony , Zhang Bai , Yin Shubai , Zhu Honglei , Xing Zefeng , Jin Xiaomin 
Published: May 2017

AbstractRiparian zone is crucial to the health of streams and their surrounding environment. Evaluation of riparian condition is essential to achieve and maintain good stream health, as well as to sustain ecological functions that riparian areas provide. This manuscript is aimed to evaluate riparian conditions of Songhua River, the fifth longest river in China, using physical structural integrality (PSI) values derived from remote sensing and validated by field measurements. The variation and clusters of PSI values were discriminated by the spatial statistics to quantify variation of riparian condition in each measurement section. Evaluation results derived from 13 measurement sections indicated that over 60% of the riparian zones have been disturbed by human activities. Analysis of land use patterns of riparian zone in the cold and hot spots found that land-use patterns had an important effect on riparian condition. The build-up and farmland areas had been the main human disturbances to the riparian condition, which were increased from 1976 to 2013. The low-low clusters (low PSI values with low neighbors) of PSI values can be implemented to identify the vulnerability of the riparian zone.
Classical-to-quantum transition behavior between two oscillators separated in space under the action of optomechanical interaction
Authors: Bai Cheng-Hua , Wang Dong-Yang , Wang Hong-Fu , Zhu Ai-Dong , Zhang Shou 
Published: May 2017

AbstractWe propose a scheme to show that the system consisting of two macroscopic oscillators separated in space which are coupled through Coulomb interaction displays the classical-to-quantum transition behavior under the action of optomechanical coupling interaction. Once the optomechanical coupling interaction disappears, the entanglement between the two separated oscillators disappears accordingly and the system will return to classical world even though there exists sufficiently strong Coulomb coupling between the oscillators. In addition, resorting to the squeezing of the cavity field generated by an optical parametric amplifier inside the cavity, we discuss the effect of squeezed light driving on this classical-to-quantum transition behavior instead of injecting the squeezed field directly. The results of numerical simulation show that the present scheme is feasible and practical and has stronger robustness against the environment temperature compared with previous schemes in current experimentally feasible regimes. The scheme might possibly help us to further clarify and grasp the classical-quantum boundary.
Quantitative refractive index distribution of single cell by combining phase-shifting interferometry and AFM imaging
Authors: Zhang Qinnan , Zhong Liyun , Tang Ping , Yuan Yingjie , Liu Shengde , Tian Jindong , Lu Xiaoxu 
Published: May 2017

AbstractCell refractive index, an intrinsic optical parameter, is closely correlated with the intracellular mass and concentration. By combining optical phase-shifting interferometry (PSI) and atomic force microscope (AFM) imaging, we constructed a label free, non-invasive and quantitative refractive index of single cell measurement system, in which the accurate phase map of single cell was retrieved with PSI technique and the cell morphology with nanoscale resolution was achieved with AFM imaging. Based on the proposed AFM/PSI system, we achieved quantitative refractive index distributions of single red blood cell and Jurkat cell, respectively. Further, the quantitative change of refractive index distribution during Daunorubicin (DNR)-induced Jurkat cell apoptosis was presented, and then the content changes of intracellular biochemical components were achieved. Importantly, these results were consistent with Raman spectral analysis, indicating that the proposed PSI/AFM based refractive index system is likely to become a useful tool for intracellular biochemical components analysis measurement, and this will facilitate its application for revealing cell structure and pathological state from a new perspective.
Ag-Mg antisite defect induced high thermoelectric performance of α-MgAgSb
Authors: Feng Zhenzhen , Zhang Jihua , Yan Yuli , Zhang Guangbiao , Wang Chao , Peng Chengxiao , Ren Fengzhu , Wang Yuanxu , Cheng Zhenxiang 
Published: May 2017

AbstractEngineering atomic-scale native point defects has become an attractive strategy to improve the performance of thermoelectric materials. Here, we theoretically predict that Ag-Mg antisite defects as shallow acceptors can be more stable than other intrinsic defects under Mg-poor‒Ag/Sb-rich conditions. Under more Mg-rich conditions, Ag vacancy dominates the intrinsic defects. The p-type conduction behavior of experimentally synthesized α-MgAgSb mainly comes from Ag vacancies and Ag antisites (Ag on Mg sites), which act as shallow acceptors. Ag-Mg antisite defects significantly increase the thermoelectric performance of α-MgAgSb by increasing the number of band valleys near the Fermi level. For Li-doped α-MgAgSb, under more Mg-rich conditions, Li will substitute on Ag sites rather than on Mg sites and may achieve high thermoelectric performance. A secondary valence band is revealed in α-MgAgSb with 14 conducting carrier pockets.
Astronomical age constraints and extinction mechanisms of the Late Triassic Carnian crisis
Authors: Miller Charlotte S. , Peterse Francien , da Silva Anne-Christine , Baranyi Viktória , Reichart Gert J. , Kürschner Wolfram M. 
Published: May 2017

AbstractThe geological record contains evidence for numerous pronounced perturbations in the global carbon cycle, some of which are associated with mass extinction. In the Carnian (Late Triassic), evidence from sedimentology and fossil pollen points to a significant change in climate, resulting in biotic turnover, during a time termed the ‘Carnian Pluvial Episode’ (CPE). Evidence from the marine realm suggests a causal relationship between the CPE, a global ‘wet’ period, and the injection of light carbon into the atmosphere. Here we provide the first evidence from a terrestrial stratigraphic succession of at least five significant negative C-isotope excursions (CIE)’s through the CPE recorded in both bulk organic carbon and compound specific plant leaf waxes. Furthermore, construction of a floating astronomical timescale for 1.09 Ma of the Late Triassic, based on the recognition of 405 ka eccentricity cycles in elemental abundance and gamma ray (GR) data, allows for the estimation of a duration for the isotope excursion(s). Source mixing calculations reveal that the observed substantial shift(s) in δ13C was most likely caused by a combination of volcanic emissions, subsequent warming and the dissociation of methane clathrates.
Investigation of optimal weight gain during pregnancy for Japanese Women
Authors: Nomura Kyoko , Kido Michiko , Tanabe Ayumi , Nagashima Kengo , Takenoshita Shinichi , Ando Kazumichi 
Published: May 2017

AbstractThis study aims to compare the US Institute of Medicine (IOM) and Japanese guidelines proposed by the Ministry and the Japan Society for the Study of Obesity on gestational weight gain (GWG), and to explore the optimal GWG range in Japanese women. We investigated 8,152 Japanese women who had full-term singleton babies between 2010 and 2013 at a single center in Tokyo. Logistic regression models showed that GWG below the recommendation of the IOM and Japanese guidelines was similarly associated with an increased risk of light-for-date (LFD), whereas GWG above these guidelines was similarly associated with an increased risk of heavy-for-date (HFD) in pre-pregnancy body mass index categories of underweight (<18.5 kg/m2, n = 1559), normal-weight (18.5–24.9 kg/m2, n = 4998), overweight (25.0–29.9 kg/m2, n = 270), and obese (30 ≤ kg/m2, n = 60). The receiver-operating characteristic curve demonstrated that the optimal cutoffs for LFD and HFD were 9.7 and 10.4 kg, respectively in normal-weight mothers. The IOM and Japanese guidelines identified the risk of LFD or HFD equally well. The optimal GWG range in normal-weight women observed in this study was more close to Japanese guideline (i.e., 7–12 kg) compared to the IOM guideline (i.e., 11.5–16 kg).
A pathway for protective quenching in antenna proteins of Photosystem II
Authors: Papadatos Sotiris , Charalambous Antreas C. , Daskalakis Vangelis 
Published: May 2017

AbstractPhotosynthesis is common in nature, converting sunlight energy into proton motive force and reducing power. The increased spectral range absorption of light exerted by pigments (i.e. chlorophylls, Chls) within Light Harvesting Complexes (LHCs) proves an important advantage under low light conditions. However, in the exposure to excess light, oxidative damages and ultimately cell death can occur. A down-regulatory mechanism, thus, has been evolved (non-photochemical quenching, NPQ). The mechanistic details of its major component (qE) are missing at the atomic scale. The research herein, initiates on solid evidence from the current NPQ state of the art, and reveals a detailed atomistic view by large scale Molecular Dynamics, Metadynamics and ab initio Simulations. The results demonstrate a complete picture of an elaborate common molecular design. All probed antenna proteins (major LHCII from spinach-pea, CP29 from spinach) show striking plasticity in helix-D, under NPQ conditions. This induces changes in Qy bands in excitation and absorption spectra of the near-by pigment pair (Chl613-614) that could emerge as a new quenching site. Zeaxanthin enhances this plasticity (and possibly the quenching) even at milder NPQ conditions.
Tracking Real-Time Changes in Working Memory Updating and Gating with the Event-Based Eye-Blink Rate
Authors: Rac-Lubashevsky Rachel , Slagter Heleen A. , Kessler Yoav 
Published: May 2017

AbstractEffective working memory (WM) functioning depends on the gating process that regulates the balance between maintenance and updating of WM. The present study used the event-based eye-blink rate (ebEBR), which presumably reflects phasic striatal dopamine activity, to examine how the cognitive processes of gating and updating separately facilitate flexible updating of WM contents and the potential involvement of dopamine in these processes. Real-time changes in eye blinks were tracked during performance on the reference-back task, in which demands on these two processes were independently manipulated. In all three experiments, trials that required WM updating and trials that required gate switching were both associated with increased ebEBR. These results may support the prefrontal cortex basal ganglia WM model (PBWM) by linking updating and gating to striatal dopaminergic activity. In Experiment 3, the ebEBR was used to determine what triggers gate switching. We found that switching to an updating mode (gate opening) was more stimulus driven and retroactive than switching to a maintenance mode, which was more context driven. Together, these findings show that the ebEBR – an inexpensive, non-invasive, easy-to-use measure – can be used to track changes in WM demands during task performance and, hence, possibly striatal dopamine activity.
Vascular endothelial growth factor modified macrophages transdifferentiate into endothelial-like cells and decrease foam cell formation
Authors: Yan Dan , He Yujuan , Dai Jun , Yang Lili , Wang Xiaoyan , Ruan Qiurong 
Published: May 2017

Macrophages are largely involved in the whole process of atherosclerosis from an initiation lesion to an advanced lesion. Endothelial disruption is the initial step and macrophage-derived foam cells are the hallmark of atherosclerosis. Promotion of vascular integrity and inhibition of foam cell formation are two important strategies for preventing atherosclerosis. How can we inhibit even the reverse negative role of macrophages in atherosclerosis? The present study was performed to investigate if overexpressing endogenous human vascular endothelial growth factor (VEGF) could facilitate transdifferentiation of macrophages into endothelial-like cells (ELCs) and inhibit foam cell formation. We demonstrated that VEGF-modified macrophages which stably overexpressed human VEGF (hVEGF165) displayed a high capability to alter their phenotype and function into ELCs in vitro. Exogenous VEGF could not replace endogenous VEGF to induce the transdifferentiation of macrophages into ELCs in vitro. We further showed that VEGF-modified macrophages significantly decreased cytoplasmic lipid accumulation after treatment with oxidized LDL (ox-LDL). Moreover, down-regulation of CD36 expression in these cells was probably one of the mechanisms of reduction in foam cell formation. Our results provided the in vitro proof of VEGF-modified macrophages as atheroprotective therapeutic cells by both promotion of vascular repair and inhibition of foam cell formation.