bluuebunny/crossref_metadata_2025_split huggingface dataset:
Metagenomic discovery of novel enzymes and biosurfactants in a slaughterhouse biofilm microbial community
Authors: Thies Stephan , Rausch Sonja Christina , Kovacic Filip , Schmidt-Thaler Alexandra , Wilhelm Susanne , Rosenau Frank , Daniel Rolf , Streit Wolfgang , Pietruszka Jörg , Jaeger Karl-Erich 
Published: June 2016

AbstractDNA derived from environmental samples is a rich source of novel bioactive molecules. The choice of the habitat to be sampled predefines the properties of the biomolecules to be discovered due to the physiological adaptation of the microbial community to the prevailing environmental conditions. We have constructed a metagenomic library in Escherichia coli DH10b with environmental DNA (eDNA) isolated from the microbial community of a slaughterhouse drain biofilm consisting mainly of species from the family Flavobacteriaceae. By functional screening of this library we have identified several lipases, proteases and two clones (SA343 and SA354) with biosurfactant and hemolytic activities. Sequence analysis of the respective eDNA fragments and subsequent structure homology modelling identified genes encoding putative N-acyl amino acid synthases with a unique two-domain organisation. The produced biosurfactants were identified by NMR spectroscopy as N-acyltyrosines with N-myristoyltyrosine as the predominant species. Critical micelle concentration and reduction of surface tension were similar to those of chemically synthesised N-myristoyltyrosine. Furthermore, we showed that the newly isolated N-acyltyrosines exhibit antibiotic activity against various bacteria. This is the first report describing the successful application of functional high-throughput screening assays for the identification of biosurfactant producing clones within a metagenomic library.
Wideband nonlinear spectral broadening in ultra-short ultra - silicon rich nitride waveguides
Authors: Choi Ju Won , Chen George F. R. , Ng D. K. T. , Ooi Kelvin J. A. , Tan Dawn T. H. 
Published: June 2016

AbstractCMOS-compatible nonlinear optics platforms with high Kerr nonlinearity facilitate the generation of broadband spectra based on self-phase modulation. Our ultra – silicon rich nitride (USRN) platform is designed to have a large nonlinear refractive index and low nonlinear losses at 1.55 μm for the facilitation of wideband spectral broadening. We investigate the ultrafast spectral characteristics of USRN waveguides with 1-mm-length, which have high nonlinear parameters (γ ∼ 550 W−1/m) and anomalous dispersion at 1.55 μm wavelength of input light. USRN add-drop ring resonators broaden output spectra by a factor of 2 compared with the bandwidth of input fs laser with the highest quality factors of 11000 and 15000. Two – fold self phase modulation induced spectral broadening is observed using waveguides only 430 μm in length, whereas a quadrupling of the output bandwidth is observed with USRN waveguides with a 1-mm-length. A broadening factor of around 3 per 1 mm length is achieved in the USRN waveguides, a value which is comparatively larger than many other CMOS-compatible platforms.
Acousto-microfluidics for screening of ssDNA aptamer
Authors: Park Jee-Woong , Lee Su Jin , Ren Shuo , Lee Sangwook , Kim Soyoun , Laurell Thomas 
Published: June 2016

AbstractWe demonstrate a new screening method for obtaining a prostate-specific antigen (PSA) binding aptamer based on an acoustofluidic separation (acoustophoreis) technique. Since acoustophoresis provides simultaneous washing and separation in a continuous flow mode, we efficiently obtained a PSA binding aptamer that shows high affinity without any additional washing step, which is necessary in other screening methods. In addition, next-generation sequencing (NGS) was applied to accelerate the identification of the screened ssDNA pool, improving the selecting process of the aptamer candidate based on the frequency ranking of the sequences. After the 8th round of the acoustophoretic systematic evolution of ligands by exponential enrichment (SELEX) and following sequence analysis with NGS, 7 PSA binding ssDNA aptamer-candidates were obtained and characterized with surface plasmon resonance (SPR) for affinity and specificity. As a result of the new SELEX method with PSA as the model target protein, the best PSA binding aptamer showed specific binding to PSA with a dissociation constant (Kd) of 0.7 nM.
Cell Deformation by Single-beam Acoustic Trapping: A Promising Tool for Measurements of Cell Mechanics
Authors: Hwang Jae Youn , Kim Jihun , Park Jin Man , Lee Changyang , Jung Hayong , Lee Jungwoo , Shung K. Kirk 
Published: June 2016

AbstractWe demonstrate a noncontact single-beam acoustic trapping method for the quantification of the mechanical properties of a single suspended cell with label-free. Experimentally results show that the single-beam acoustic trapping force results in morphological deformation of a trapped cell. While a cancer cell was trapped in an acoustic beam focus, the morphological changes of the immobilized cell were monitored using bright-field imaging. The cell deformability was then compared with that of a trapped polystyrene microbead as a function of the applied acoustic pressure for a better understanding of the relationship between the pressure and degree of cell deformation. Cell deformation was found to become more pronounced as higher pressure levels were applied. Furthermore, to determine if this acoustic trapping method can be exploited in quantifying the cell mechanics in a suspension and in a non-contact manner, the deformability levels of breast cancer cells with different degrees of invasiveness due to acoustic trapping were compared. It was found that highly-invasive breast cancer cells exhibited greater deformability than weakly-invasive breast cancer cells. These results clearly demonstrate that the single-beam acoustic trapping technique is a promising tool for non-contact quantitative assessments of the mechanical properties of single cells in suspensions with label-free.
Towards the Better: Intrinsic Property Amelioration in Bulk Metallic Glasses
Authors: Sarac Baran , Zhang Long , Kosiba Konrad , Pauly Simon , Stoica Mihai , Eckert Jürgen 
Published: June 2016

AbstractTailoring the intrinsic length-scale effects in bulk metallic glasses (BMGs) via post-heat treatment necessitates a systematic analyzing strategy. Although various achievements were made in the past years to structurally enhance the properties of different BMG alloys, the influence of short-term sub-glass transition annealing on the relaxation kinetics is still not fully covered. Here, we aim for unraveling the connection between the physical, (thermo)mechanical and structural changes as a function of selected pre-annealing temperatures and time scales with an in-house developed Cu46Zr44Al8Hf2 based BMG alloy. The controlled formation of nanocrystals below 50 nm with homogenous distribution inside the matrix phase via thermal treatment increase the material’s resistance to strain softening by almost an order of magnitude. The present work determines the design aspects of metallic glasses with enhanced mechanical properties via nanostructural modifications, while postulating a counter-argument to the intrinsic property degradation accounted for long-term annealing.
Dissolved oxygen content prediction in crab culture using a hybrid intelligent method
Authors: Yu Huihui , Chen Yingyi , Hassan ShahbazGul , Li Daoliang 
Published: June 2016

AbstractA precise predictive model is needed to obtain a clear understanding of the changing dissolved oxygen content in outdoor crab ponds, to assess how to reduce risk and to optimize water quality management. The uncertainties in the data from multiple sensors are a significant factor when building a dissolved oxygen content prediction model. To increase prediction accuracy, a new hybrid dissolved oxygen content forecasting model based on the radial basis function neural networks (RBFNN) data fusion method and a least squares support vector machine (LSSVM) with an optimal improved particle swarm optimization(IPSO) is developed. In the modelling process, the RBFNN data fusion method is used to improve information accuracy and provide more trustworthy training samples for the IPSO-LSSVM prediction model. The LSSVM is a powerful tool for achieving nonlinear dissolved oxygen content forecasting. In addition, an improved particle swarm optimization algorithm is developed to determine the optimal parameters for the LSSVM with high accuracy and generalizability. In this study, the comparison of the prediction results of different traditional models validates the effectiveness and accuracy of the proposed hybrid RBFNN-IPSO-LSSVM model for dissolved oxygen content prediction in outdoor crab ponds.
Nitrogen Chemistry and Coke Transformation of FCC Coked Catalyst during the Regeneration Process
Authors: Shi Junjun , Guan Jianyu , Guo Dawei , Zhang Jiushun , France Liam John , Wang Lefu , Li Xuehui 
Published: June 2016

AbstractRegeneration of the coked catalyst is an important process of fluid catalytic cracking (FCC) in petroleum refining, however, this process will emit environmentally harmful gases such as nitrogen and carbon oxides. Transformation of N and C containing compounds in industrial FCC coke under thermal decomposition was investigated via TPD and TPO to examine the evolved gaseous species and TGA, NMR and XPS to analyse the residual coke fraction. Two distinct regions of gas evolution are observed during TPD for the first time and they arise from decomposition of aliphatic carbons and aromatic carbons. Three types of N species, pyrrolic N, pyridinic N and quaternary N are identified in the FCC coke, the former one is unstable and tends to be decomposed into pyridinic and quaternary N. Mechanisms of NO, CO and CO2 evolution during TPD are proposed and lattice oxygen is suggested to be an important oxygen resource. Regeneration process indicates that coke-C tends to preferentially oxidise compared with coke-N. Hence, new technology for promoting nitrogen-containing compounds conversion will benefit the in-situ reduction of NO by CO during FCC regeneration.
Inhibition of inflammatory reactions in 2,4-Dinitrochlorobenzene induced Nc/Nga atopic dermatitis mice by non-thermal plasma
Authors: Choi Jeong-Hae , Song Yeon-Suk , Lee Hae-June , Hong Jin-Woo , Kim Gyoo-Cheon 
Published: June 2016

AbstractNon-thermal plasma (NTP) has recently been introduced and reported as a novel tool with a range of medicinal and biological roles. Although many studies using NTP have been performed, none has investigated the direct relationship between NTP and immune responses yet. Especially, the effects of NTP on atopic dermatitis (AD) were not been explored. Here, NTP was tested whether it controls immune reactions of AD. NTP treatment was administered to pro-inflammatory cytokine-stimulated keratinocytes and DNCB (2,4-Dinitrochlorobenzene)-induced atopic dermatitis mice, then the immune reactions of cells and skin tissues were monitored. Cells treated with NTP showed decreased expression levels of CCL11, CCL13, and CCL17 along with down-regulation of NF-κB activity. Repeated administration of NTP to AD-induced mice reduced the numbers of mast cells and eosinophils, IgE, CCL17, IFNγ levels, and inhibited NF-κB activity in the skin lesion. Furthermore, combined treatment with NTP and 1% hydrocortisone cream significantly decreased the immune responses of AD than that with either of these two treatments individually. Overall, this study revealed that NTP significantly inhibits several immune reactions of AD by regulating NF-κB activity. Therefore, NTP could be useful to suppress the exaggerated immune reactions in severe skin inflammatory diseases such as AD.
Penicimenolides A-F, Resorcylic Acid Lactones from Penicillium sp., isolated from the Rhizosphere Soil of Panax notoginseng
Authors: An Ya-Nan , Zhang Xue , Zhang Tian-Yuan , Zhang Meng-Yue , Qian-Zhang  , Deng Xiao-Yu , Zhao Feng , Zhu Ling-Juan , Wang Guan , Zhang Jie , Zhang Yi-Xuan , Liu Bo , Yao Xin-Sheng 
Published: June 2016

AbstractFive new 12-membered resorcylic acid lactone derivatives, penicimenolides A-E (1–5), one new ring-opened resorcylic acid lactone derivative penicimenolide F (6) and six known biogenetically related derivatives (7–12) were isolated from the culture broth of a strain of Penicillium sp. (NO. SYP-F-7919), a fungus obtained from the rhizosphere soil of Panax notoginseng collected from the Yunnan province of China. Their structures were elucidated by extensive NMR analyses, a modified Mosher’s method, chemical derivatization and single crystal X-ray diffraction analysis. Compounds 2–4 exhibited potent cytotoxicity against the U937 and MCF-7 tumour cell lines and showed moderate cytotoxic activity against the SH-SY5Y and SW480 tumour cell lines. The substitution of an acetyloxy or 2-hydroxypropionyloxy group at C-7 significantly increased the cytotoxic activity of the resorcylic acid lactone derivatives. Subsequently, the possible mechanism of compound 2 against MCF-7 cells was preliminarily investigated by in silico analysis and experimental validation, indicating compound 2 may act as a potential MEK/ERK inhibitor. Moreover, proteomics analysis was performed to explore compound 2-regulated concrete mechanism underlying MEK/ERK pathway, which is still need further study in the future. In addition, compounds 2–4 and 7 exhibited a significant inhibitory effect on NO production induced by LPS.
Structural, electronic and kinetic properties of the phase-change material Ge2Sb2Te5 in the liquid state
Authors: Schumacher Mathias , Weber Hans , Jóvári Pál , Tsuchiya Yoshimi , Youngs Tristan G. A. , Kaban Ivan , Mazzarello Riccardo 
Published: June 2016

AbstractPhase-change materials exhibit fast and reversible transitions between an amorphous and a crystalline state at high temperature. The two states display resistivity contrast, which is exploited in phase-change memory devices. The technologically most important family of phase-change materials consists of Ge-Sb-Te alloys. In this work, we investigate the structural, electronic and kinetic properties of liquid Ge2Sb2Te5 as a function of temperature by a combined experimental and computational approach. Understanding the properties of this phase is important to clarify the amorphization and crystallization processes. We show that the structural properties of the models obtained from ab initio and reverse Monte Carlo simulations are in good agreement with neutron and X-ray diffraction experiments. We extract the kinetic coefficients from the molecular dynamics trajectories and determine the activation energy for viscosity. The obtained value is shown to be fully compatible with our viscosity measurements.
Pupal diapause termination in Bactrocera minax: an insight on 20-hydroxyecdysone induced phenotypic and genotypic expressions
Authors: Chen Zhenzhong , Dong Yongcheng , Wang Yaohui , Andongma Awawing A. , Rashid Muhammad A. , Krutmuang Patcharin , Niu Changying 
Published: June 2016

AbstractThe Chinese citrus fruit fly,Bactrocera minax, is an economically important pest of citrus. It exhibits pupal diapause from November to May to combat harsh environmental conditions. Such a long pupal diapause is a barrier for laboratory rearing and development of control strategies against this pest. In the present study, 20-hydroxyecdysone (20E) was used to break pupal diapause ofB. minaxby topical application. After diapause termination by 20E treated, the pupal ontogenetic processes were observed along the temporal trajectory. The pupal response time to 20E was estimated by detecting the relative expression of 20E responsive genes at different times after 20E-treatment. Results revealed that 20E could effectively terminate the pupal diapause in a dose-dependent manner and significantly shorten the time for 50% adult emergence (Et50). 20E response genes, includingecr,broadandfoxo, were up-regulated within 72h, indicating these genes are involved in pupal metamorphosis and diapause termination processes. Morphological changes showed the pupal metamorphosis began ~7 days after 20E-treatment at 22 °C. This study does not only pave the way for artificial rearing in the laboratory through manipulating of pupal diapause termination, but also deepens our understanding of the underlying pupal diapause termination mechanism ofB. minax.
Joint Effect of Early Microvascular Damage in the Eye & Kidney on Risk of Cardiovascular Events
Authors: Yip Wanfen , Sabanayagam Charumathi , Ong Peng Guan , Patel Uptal D , Chow Khuan Yew , Tai E Shyong , Ling Lieng H , Wong Tien Yin , Cheung Carol Yim-lui 
Published: June 2016

AbstractMicroalbuminuria is associated with an increased risk of cardiovascular disease (CVD), but not all individuals require treatment. Retinal microvascular abnormalities and microalbuminuria reflect early systemic microvascular changes. We examined the joint effect of retinal abnormalities and microalbuminuria on CVD risk in an Asian cohort. We conducted a prospective, population-based study. Retinal abnormalities were defined as presence of retinopathy and/or retinal venular widening. Microalbuminuria was defined as urinary albumin: creatinine ratio between 30–300 mg/g. Incident CVD was defined as newly diagnosed clinical stroke, acute myocardial infarction or CVD death. Cox regression models were performed to determine the associations between retinal abnormalities and microalbuminuria with risk of CVD, while controlling for established risk factors. 3,496 participants (aged ≥ 40) were free of prevalent CVD. During the follow-up (5.8 years), 126 (3.60%) participants developed CVD. Persons presenting with both retinal abnormalities and microalbuminuria were 6.71 times (95% CI, 2.68, 16.79) as likely to have incident CVD compared with those without either abnormalities. There was a significant interaction effect between retinal abnormalities and microalbuminuria on incident CVD. Assessment of retinal abnormalities in patients with microalbuminuria may provide additional value in identifying persons at risk of developing CVD.
DNA Demethylation Rescues the Impaired Osteogenic Differentiation Ability of Human Periodontal Ligament Stem Cells in High Glucose
Authors: Liu Zhi , Chen Tian , Sun Wenhua , Yuan Zongyi , Yu Mei , Chen Guoqing , Guo Weihua , Xiao Jingang , Tian Weidong 
Published: June 2016

AbstractDiabetes mellitus, characterized by abnormally high blood glucose levels, gives rise to impaired bone remodeling. In response to high glucose (HG), the attenuated osteogenic differentiation capacity of human periodontal ligament stem cells (hPDLSCs) is associated with the loss of alveolar bone. Recently, DNA methylation was reported to affect osteogenic differentiation of stem cells in pathological states. However, the intrinsic mechanism linking DNA methylation to osteogenic differentiation ability in the presence of HG is still unclear. In this study, we found that diabetic rats with increased DNA methylation levels in periodontal ligaments exhibited reduced bone mass and density.In vitroapplication of 5-aza-2′-deoxycytidine (5-aza-dC), a DNA methyltransferase inhibitor, to decrease DNA methylation levels in hPDLSCs, rescued the osteogenic differentiation capacity of hPDLSCs under HG conditions. Moreover, we demonstrated that the canonical Wnt signaling pathway was activated during this process and, under HG circumstances, the 5-aza-dC-rescued osteogenic differentiation capacity was blocked by Dickkopf-1, an effective antagonist of the canonical Wnt signaling pathway. Taken together, these results demonstrate for the first time that suppression of DNA methylation is able to facilitate the osteogenic differentiation capacity of hPDLSCs exposed to HG, through activation of the canonical Wnt signaling pathway.
CRAF R391W is a melanoma driver oncogene
Authors: Atefi Mohammad , Titz Bjoern , Tsoi Jennifer , Avramis Earl , Le Allison , Ng Charles , Lomova Anastasia , Lassen Amanda , Friedman Michael , Chmielowski Bartosz , Ribas Antoni , Graeber Thomas G. 
Published: June 2016

AbstractApproximately 75% of melanomas have known driver oncogenic mutations in BRAF, NRAS, GNA11 or GNAQ, while the mutations providing constitutive oncogenic signaling in the remaining melanomas are not known. We established a melanoma cell line from a tumor with none of the common driver mutations. This cell line demonstrated a signaling profile similar to BRAF-mutants, but lacked sensitivity to the BRAF inhibitor vemurafenib. RNA-seq mutation data implicated CRAF R391W as the alternative driver mutation of this melanoma. CRAF R391W was homozygous and over expressed. These melanoma cells were highly sensitive to CRAF, but not BRAF knockdown. In reconstitution experiments, CRAF R391W, but not CRAF WT, transformed NIH3T3 cells in soft-agar colony formation assays, increased kinase activity in vitro, induced MAP kinase signaling and conferred vemurafenib resistance. MAP kinase inducing activity was dependent on CRAF dimerization. Thus, CRAF is a bona fide alternative oncogene for BRAF/NRAS/GNAQ/GNA11 wild type melanomas.
Local Immune Stimulation by Intravesical Instillation of Baculovirus to Enable Bladder Cancer Therapy
Authors: Ang Wei Xia , Zhao Ying , Kwang Timothy , Wu Chunxiao , Chen Can , Toh Han Chong , Mahendran Ratha , Esuvaranathan Kesavan , Wang Shu 
Published: June 2016

AbstractIntravesical instillation of Bacillus Calmette-Guérin is currently used as adjuvant therapy for superficial, non-muscle invasive bladder cancer (NMIBC). However, nearly 40% of patients with NMIBC will fail Bacillus Calmette-Guérin therapy. In an attempt to investigate the feasibility of using insect baculovirus-based vectors for bladder cancer therapy, we observed that intravesical instillation of baculoviruses without transgene up-regulated a set of Th1-type of cytokines and increased the survival rate of mice bearing established orthotopic bladder tumors. When baculoviral vectors were used to co-deliver the mouse CD40 ligand and IL-15 genes through intravesical instillation, the immunogene therapy triggered significantly increased bladder infiltrations of inflammatory monocytes, CD4+, CD8+ and γδ T lymphocytes. All treated animals survived beyond 12 months whereas control animals died around 2 months after tumor inoculation. We conclude that direct intravesical instillation of baculoviral gene transfer vectors holds the potential to be a novel therapeutic modality for NMIBC.
Advanced and flexible multi-carrier receiver architecture for high-count multi-core fiber based space division multiplexed applications
Authors: Asif Rameez 
Published: June 2016

AbstractSpace division multiplexing (SDM), incorporating multi-core fibers (MCFs), has been demonstrated for effectively maximizing the data capacity in an impending capacity crunch. To achieve high spectral-density through multi-carrier encoding while simultaneously maintaining transmission reach, benefits from inter-core crosstalk (XT) and non-linear compensation must be utilized. In this report, we propose a proof-of-concept unified receiver architecture that jointly compensates optical Kerr effects, intra- and inter-core XT in MCFs. The architecture is analysed in multi-channel 512 Gbit/s dual-carrier DP-16QAM system over 800 km 19-core MCF to validate the digital compensation of inter-core XT. Through this architecture: (a) we efficiently compensates the inter-core XT improving Q-factor by 4.82 dB and (b) achieve a momentous gain in transmission reach, increasing the maximum achievable distance from 480 km to 1208 km, via analytical analysis. Simulation results confirm that inter-core XT distortions are more relentless for cores fabricated around the central axis of cladding. Predominantly, XT induced Q-penalty can be suppressed to be less than 1 dB up-to −11.56 dB of inter-core XT over 800 km MCF, offering flexibility to fabricate dense core structures with same cladding diameter. Moreover, this report outlines the relationship between core pitch and forward-error correction (FEC).