bluuebunny/crossref_metadata_2025_split huggingface dataset:
One-step Solution Processing of Ag, Au and Pd@MXene Hybrids for SERS
Authors: Satheeshkumar Elumalai , Makaryan Taron , Melikyan Armen , Minassian Hayk , Gogotsi Yury , Yoshimura Masahiro 
Published: August 2016

AbstractWe report on one-step hybridization of silver, gold and palladium nanoparticles from solution onto exfoliated two-dimensional (2D) Ti3C2 titanium carbide (MXene) nanosheets. The produced hybrid materials can be used as substrates for surface-enhanced Raman spectroscopy (SERS). An approximate analytical approach is also developed for the calculation of the surface plasmon resonance (SPR) frequency of nanoparticles immersed in a medium, near the interface of two dielectric media with different dielectric constants. We obtained a good match with the experimental data for SPR wavelengths, 440 nm and 558 nm, respectively for silver and gold nanoparticles. In the case of palladium, our calculated SPR wavelength for the planar geometry was 160 nm, demonstrating that non-spherical palladium nanoparticles coupled with 2D MXene yield a broad, significanlty red-shifted SPR band with a peak at 230 nm. We propose a possible mechanism of the plasmonic hybridization of nanoparticles with MXene. The as-prepared noble metal nanoparticles on MXene show a highly sensitive SERS detection of methylene blue (MB) with calculated enhancement factors on the order of 105. These findings open a pathway for extending visible-range SERS applications of novel 2D hybrid materials in sensors, catalysis, and biomedical applications.
Biofilm may not be Necessary for the Epidemic Spread of Acinetobacter baumannii
Authors: Hu Yuan , He Lihua , Tao Xiaoxia , Meng Fanliang , Zhang Jianzhong 
Published: August 2016

AbstractBiofilm is recognized as a contributing factor to the capacity of Acinetobacter baumannii to persist and prosper in medical settings, but it is still unknown whether biofilms contribute to the spread of A. baumannii. In this study, the biofilm formation of 114 clinical A. baumannii isolates and 32 non-baumannii Acinetobacter isolates was investigated using a microtiter plate assay. The clonal relationships among A. baumannii isolates were assessed using pulsed-field gel electrophoresis and multilocus sequence typing and one major outbreak clone and 5 other epidemic clones were identified. Compared with the epidemic or outbreak A. baumannii isolates, the sporadic isolates had significantly higher biofilm formation, but no significant difference was observed between the sporadic A. baumannii isolates and the non-baumannii Acinetobacter isolates, suggesting that biofilm is not important for the epidemic spread of A. baumannii. Of the multidrug-resistant (MDR) A. baumannii isolates in this study, 95.7% were assigned to international clone 2 (IC2) and showed significantly lower biofilm formations than the other isolates, suggesting that biofilm did not contribute to the high success of IC2. These findings have increased our understanding of the potential relationship between biofilm formation and the epidemic capacity of A. baumannii.
A micromechanical comparison of human and porcine skin before and after preservation by freezing for medical device development
Authors: Ranamukhaarachchi S. A. , Lehnert S. , Ranamukhaarachchi S. L. , Sprenger L. , Schneider T. , Mansoor I. , Rai K. , Häfeli U. O. , Stoeber B. 
Published: August 2016

AbstractCollecting human skin samples for medical research, including developing microneedle-based medical devices, is challenging and time-consuming. Researchers rely on human skin substitutes and skin preservation techniques, such as freezing, to overcome the lack of skin availability. Porcine skin is considered the best substitute to human skin, but their mechanical resemblance has not been fully validated. We provide a direct mechanical comparison between human and porcine skin samples using a conventional mechano-analytical technique (microindentation) and a medical application (microneedle insertion), at 35% and 100% relative humidity. Human and porcine skin samples were tested immediately after surgical excision from subjects, and after one freeze-thaw cycle at −80 °C to assess the impact of freezing on their mechanical properties. The mechanical properties of fresh human and porcine skin (especially of the stratum corneum) were found to be different for bulk measurements using microindentation; and both types of skin were mechanically affected by freezing. Localized in-plane mechanical properties of skin during microneedle insertion appeared to be more comparable between human and porcine skin samples than their bulk out-of-plane mechanical properties. The results from this study serve as a reference for future mechanical tests conducted with frozen human skin and/or porcine skin as a human skin substitute.
Functional characterization of open chromatin in bidirectional promoters of rice
Authors: Fang Yuan , Wang Ximeng , Wang Lei , Pan Xiucai , Xiao Jin , Wang Xiu-e , Wu Yufeng , Zhang Wenli 
Published: August 2016

AbstractBidirectional gene pairs tend to be highly coregulated and function in similar biological processes in eukaryotic genomes. Structural features and functional consequences of bidirectional promoters (BDPs) have received considerable attention among diverse species. However, the underlying mechanisms responsible for the bidirectional transcription and coexpression of BDPs remain poorly understood in plants. In this study, we integrated DNase-seq, RNA-seq, ChIP-seq and MNase-seq data and investigated the effect of physical DNase I hypersensitive site (DHS) positions on the transcription of rice BDPs. We found that the physical position of a DHS relative to the TSS of bidirectional gene pairs can affect the expression of the corresponding genes: the closer a DHS is to the TSS, the higher is the expression level of the genes. Most importantly, we observed that the distribution of DHSs plays a significant role in the regulation of transcription and the coexpression of gene pairs, which are possibly mediated by orchestrating the positioning of histone marks and canonical nucleosomes around BDPs. Our results demonstrate that the combined actions of chromatin structures with DHSs, which contain functional cis-elements for interaction with transcriptional machinery, may play an important role in the regulation of the bidirectional transcription or coexpression in rice BDPs. Our findings may help to enhance the understanding of DHSs in the regulation of bidirectional gene pairs.
Miniature Surface Plasmon Polariton Amplitude Modulator by Beat Frequency and Polarization Control
Authors: Chang Cheng-Wei , Lin Chu-En , Yu Chih-Jen , Yeh Ting-Tso , Yen Ta-Jen 
Published: August 2016

AbstractThe miniaturization of modulators keeps pace for the compact devices in optical applications. Here, we present a miniature surface plasmon polariton amplitude modulator (SPPAM) by directing and interfering surface plasmon polaritons on a nanofabricated chip. Our results show that this SPPAM enables two kinds of modulations. The first kind of modulation is controlled by encoding angular-frequency difference from a Zeeman laser, with a beat frequency of 1.66 MHz; the second of modulation is validated by periodically varying the polarization states from a polarization generator, with rotation frequencies of 0.5–10 k Hz. In addition, the normalized extinction ratio of our plasmonic structure reaches 100. Such miniaturized beat-frequency and polarization-controlled amplitude modulators open an avenue for the exploration of ultrasensitive nanosensors, nanocircuits, and other integrated nanophotonic devices.
sNebula, a network-based algorithm to predict binding between human leukocyte antigens and peptides
Authors: Luo Heng , Ye Hao , Ng Hui Wen , Sakkiah Sugunadevi , Mendrick Donna L. , Hong Huixiao 
Published: August 2016

AbstractUnderstanding the binding between human leukocyte antigens (HLAs) and peptides is important to understand the functioning of the immune system. Since it is time-consuming and costly to measure the binding between large numbers of HLAs and peptides, computational methods including machine learning models and network approaches have been developed to predict HLA-peptide binding. However, there are several limitations for the existing methods. We developed a network-based algorithm called sNebula to address these limitations. We curated qualitative Class I HLA-peptide binding data and demonstrated the prediction performance of sNebula on this dataset using leave-one-out cross-validation and five-fold cross-validations. This algorithm can predict not only peptides of different lengths and different types of HLAs, but also the peptides or HLAs that have no existing binding data. We believe sNebula is an effective method to predict HLA-peptide binding and thus improve our understanding of the immune system.
Effects of Nitrogen and Shading on Root Morphologies, Nutrient Accumulation, and Photosynthetic Parameters in Different Rice Genotypes
Authors: Pan Shenggang , Liu Haidong , Mo Zhaowen , Patterson Bob , Duan Meiyang , Tian Hua , Hu Shuijin , Tang Xiangru 
Published: August 2016

AbstractNitrogen availability and illumination intensity are two key factors which affect rice growth. However, their influences on total nitrogen accumulation, photosynthetic rate, root morphologies, and yields are not fully understood. We conducted two field experiments to (1) evaluate the effects of shading under different N treatments on photosynthetic parameters, root morphologies, total nutrient accumulation, and grain yields of rice; and (2) elucidate the relationship between total nutrient accumulation and root morphologies under different shading conditions and nitrogen treatments. Three nitrogen rates, three shading treatments, and three different rice cultivars were used in two field experiments. Double shading during the grain-filling stage decreased total nutrient accumulation, altered root morphological characteristics, and decreased yields in rice. There were also significant interaction effects between nitrogen and shading on photosynthetic rate, transpiration rate, and total root length, root superficial area, and root volume. Significant interactions were found among cultivars and shading for photosynthetic rate and transpiration rate. Correlation analysis revealed that total nitrogen accumulation (TNA) and potassium accumulation (TKA) were significantly positively correlated with total root length, root superficial area, and root volume. N application could alleviate the detrimental effects of shading on total nutrient accumulation and grain yield in rice.
Antibody responses to Plasmodium falciparum and Plasmodium vivax blood-stage and sporozoite antigens in the postpartum period
Authors: McLean Alistair R. D. , Boel Machteld E. , McGready Rose , Ataide Ricardo , Drew Damien , Tsuboi Takafumi , Beeson James G. , Nosten François , Simpson Julie A. , Fowkes Freya J. I. 
Published: August 2016

AbstractDuring pregnancy a variety of immunological changes occur to accommodate the fetus. It is unknown whether these changes continue to affect humoral immunity postpartum or how quickly they resolve. IgG levels were measured to P. falciparum and P. vivax antigens in 201 postpartum and 201 controls over 12 weeks. Linear mixed-effects models assessed antibody maintenance over time and the effect of microscopically confirmed Plasmodium spp. infection on antibody levels, and whether this was different in postpartum women compared with control women. Postpartum women had reduced Plasmodium spp. antibody levels compared to controls at baseline. Over 12 weeks, mean antibody levels in postpartum women increased to levels observed in control women. Microscopically confirmed P. falciparum and P. vivax infections during follow-up were associated with an increase in species-specific antibodies with similar magnitudes of boosting observed in postpartum and control women. Antibodies specific for pregnancy-associated, VAR2CSA-expressing parasites did not rapidly decline postpartum and did not boost in response to infection in either postpartum or control women. After pregnancy, levels of malaria-specific antibodies were reduced, but recovered to levels seen in control women. There was no evidence of an impaired ability to mount a boosting response in postpartum women.
Evolution of Electronic Circuits using Carbon Nanotube Composites
Authors: Massey M. K. , Kotsialos A. , Volpati D. , Vissol-Gaudin E. , Pearson C. , Bowen L. , Obara B. , Zeze D. A. , Groves C. , Petty M. C. 
Published: August 2016

AbstractEvolution-in-materio concerns the computer controlled manipulation of material systems using external stimuli to train or evolve the material to perform a useful function. In this paper we demonstrate the evolution of a disordered composite material, using voltages as the external stimuli, into a form where a simple computational problem can be solved. The material consists of single-walled carbon nanotubes suspended in liquid crystal; the nanotubes act as a conductive network, with the liquid crystal providing a host medium to allow the conductive network to reorganise when voltages are applied. We show that the application of electric fields under computer control results in a significant change in the material morphology, favouring the solution to a classification task.
Improving the Production of L-Phenylalanine by Identifying Key Enzymes Through Multi-Enzyme Reaction System in Vitro
Authors: Ding Dongqin , Liu Yongfei , Xu Yiran , Zheng Ping , Li Haixing , Zhang Dawei , Sun Jibin 
Published: August 2016

AbstractL-Phenylalanine (L-Phe) is an important amino acid used in both food and medicinal applications. We developed an in vitro system that allowed a direct, quantitative investigation of phenylalanine biosynthesis in E. coli. Here, the absolute concentrations of six enzymes (AroK, AroL, AroA, AroC, PheA and TyrB) involved in the shikimate (SHIK) pathway were determined by a quantitative proteomics approach and in vitro enzyme titration experiments. The reconstitution of an in vitro reaction system for these six enzymes was established and their effects on the phenylalanine production were tested. The results showed that the yield of phenylalanine increased 3.0 and 2.1 times when the concentrations of shikimate kinase (AroL) and 5-enolpyruvoyl shikimate 3-phosphate (EPSP) synthase (AroA) were increased 2.5 times. Consistent results were obtained from in vivo via the overexpression of AroA in a phenylalanine-producing strain and the titer of phenylalanine reached 62.47 g/l after 48 h cultivation in a 5-liter jar fermentor. Our quantitative findings provide a practical method to detect the potential bottleneck in a specific metabolic pathway to determine which gene products should be targeted to improve the yield of the desired product.
Highly Efficient Electrochemical Hydrogen Evolution Reaction at Insulating Boron Nitride Nanosheet on Inert Gold Substrate
Authors: Uosaki Kohei , Elumalai Ganesan , Dinh Hung Cuong , Lyalin Andrey , Taketsugu Tetsuya , Noguchi Hidenori 
Published: August 2016

AbstractIt is demonstrated that electrochemical hydrogen evolution reaction (HER) proceeds very efficiently at Au electrode, an inert substrate for HER, modified with BNNS, an insulator. This combination has been reported to be an efficient electrocatalyst for oxygen reduction reaction. Higher efficiency is achieved by using the size controlled BNNS (<1 μm) for the modification and the highest efficiency is achieved at Au electrode modified with the smallest BNNS (0.1–0.22 μm) used in this study where overpotentials are only 30 mV and 40 mV larger than those at Pt electrode, which is known to be the best electrode for HER, at 5 mAcm−2 and at 15 mAcm−2, respectively. Theoretical evaluation suggests that some of edge atoms provide energetically favored sites for adsorbed hydrogen, i.e., the intermediate state of HER. This study opens a new route to develop HER electrocatalysts.
Long distance seawater intrusion through a karst conduit network in the Woodville Karst Plain, Florida
Authors: Xu Zexuan , Bassett Seth Willis , Hu Bill , Dyer Scott Barrett 
Published: August 2016

AbstractFive periods of increased electrical conductivity have been found in the karst conduits supplying one of the largest first magnitude springs in Florida with water. Numerous well-developed conduit networks are distributed in the Woodville Karst Plain (WKP), Florida and connected to the Gulf of Mexico. A composite analysis of precipitation and electrical conductivity data provides strong evidence that the increases in conductivity are directly tied to seawater intrusion moving inland and traveling 11 miles against the prevailing regional hydraulic gradient from from Spring Creek Spring Complex (SCSC), a group of submarine springs at the Gulf Coast. A geochemical analysis of samples from the spring vent rules out anthropogenic contamination and upwelling regional recharge from the deep aquifer as sources of the rising conductivity. The interpretation is supported by the conceptual model established by prior researchers working to characterize the study area. This paper documents the first and longest case of seawater intrusion in the WKP and also indicates significant possibility of seawater contamination through subsurface conduit networks in a coastal karst aquifer.
Wedelolactone enhances osteoblastogenesis by regulating Wnt/β-catenin signaling pathway but suppresses osteoclastogenesis by NF-κB/c-fos/NFATc1 pathway
Authors: Liu Yan-Qiu , Hong Zhi-Lai , Zhan Li-Bin , Chu Hui-Ying , Zhang Xiao-Zhe , Li Guo-Hui 
Published: August 2016

AbstractBone homeostasis is maintained by formation and destruction of bone, which are two processes tightly coupled and controlled. Targeting both stimulation on bone formation and suppression on bone resorption becomes a promising strategy for treating osteoporosis. In this study, we examined the effect of wedelolactone, a natural product from Ecliptae herba, on osteoblastogenesis as well as osteoclastogenesis. In mouse bone marrow mesenchymal stem cells (BMSC), wedelolactone stimulated osteoblast differentiation and bone mineralization. At the molecular level, wedelolactone directly inhibited GSK3β activity and enhanced the phosphorylation of GSK3β, thereafter stimulated the nuclear translocation of β-catenin and runx2. The expression of osteoblastogenesis-related marker gene including osteorix, osteocalcin and runx2 increased. At the same concentration range, wedelolactone inhibited RANKL-induced preosteoclastic RAW264.7 actin-ring formation and bone resorption pits. Further, wedelolactone blocked NF-kB/p65 phosphorylation and abrogated the NFATc1 nuclear translocation. As a result, osteoclastogenesis-related marker gene expression decreased, including c-src, c-fos and cathepsin K. In ovariectomized mice, administration of wedelolactone prevented ovariectomy-induced bone loss by enhancing osteoblast activity and inhibiting osteoclast activity. Together, these data demonstrated that wedelolactone facilitated osteoblastogenesis through Wnt/GSK3β/β-catenin signaling pathway and suppressed RANKL-induced osteoclastogenesis through NF-κB/c-fos/NFATc1 pathway. These results suggested that wedelolacone could be a novel dual functional therapeutic agent for osteoporosis.
Functional regeneration of the transected recurrent laryngeal nerve using a collagen scaffold loaded with laminin and laminin-binding BDNF and GDNF
Authors: Wang Baoxin , Yuan Junjie , Chen Xinwei , Xu Jiafeng , Li Yu , Dong Pin 
Published: August 2016

AbstractRecurrent laryngeal nerve (RLN) injury remains a challenge due to the lack of effective treatments. In this study, we established a new drug delivery system consisting of a tube of Heal-All Oral Cavity Repair Membrane loaded with laminin and neurotrophic factors and tested its ability to promote functional recovery following RLN injury. We created recombinant fusion proteins consisting of brain-derived neurotrophic factor (BDNF) and glial cell line-derived neurotrophic factor (GDNF) fused to laminin-binding domains (LBDs) in order to prevent neurotrophin diffusion. LBD-BDNF, LBD-GDNF, and laminin were injected into a collagen tube that was fitted to the ends of the transected RLN in rats. Functional recovery was assessed 4, 8, and 12 weeks after injury. Although vocal fold movement was not restored until 12 weeks after injury, animals treated with the collagen tube loaded with laminin, LBD-BDNF and LBD-GDNF showed improved recovery in vocalisation, arytenoid cartilage angles, compound muscle action potentials and regenerated fibre area compared to animals treated by autologous nerve grafting (p < 0.05). These results demonstrate the drug delivery system induced nerve regeneration following RLN transection that was superior to that induced by autologus nerve grafting. It may have potential applications in nerve regeneration of RLN transection injury.
Loss of Ewing sarcoma EWS allele promotes tumorigenesis by inducing chromosomal instability in zebrafish
Authors: Park Hyewon , Galbraith Richard , Turner Thaddeus , Mehojah Justin , Azuma Mizuki 
Published: August 2016

AbstractThe Ewing sarcoma family of tumors expresses aberrant EWSR1- (EWS) fusion genes that are derived from chromosomal translocation. Although these fusion genes are well characterized as transcription factors, their formation leaves a single EWS allele in the sarcoma cells and the contribution that the loss of EWS makes towards disease pathogenesis is unknown. To address this question, we utilized zebrafish mutants for ewsa and tp53. The zebrafish tp53(M214K)w/m line and the ewsaw/m, zygotic ewsam/m and Maternal-Zygotic (MZ) ewsam/m lines all displayed zero to low incidence of tumorigenesis. However, when the ewsa and tp53 mutant lines were crossed with each other, the incidence of tumorigenesis drastically increased. Furthermore, 27 hour post fertilization (hpf) MZ ewsam/m mutant embryos displayed a higher incidence of aberrant chromosome numbers and mitotic dysfunction compared to wildtype zebrafish embryos. Consistent with this finding, tumor samples obtained from ewsam/m;tp53w/m zebrafish displayed loss of heterozygosity (LOH) for the wildtype tp53 locus. These results suggest that wildtype Ewsa inhibits LOH induction, possibly by maintaining chromosomal stability. We propose that the loss of ewsa promotes tumorigenesis and EWS deficiency may contribute to the pathogenesis of EWS-fusion-expressing sarcomas.
Synergistic and compensatory effects of two point mutations conferring target-site resistance to fipronil in the insect GABA receptor RDL
Authors: Zhang Yixi , Meng Xiangkun , Yang Yuanxue , Li Hong , Wang Xin , Yang Baojun , Zhang Jianhua , Li Chunrui , Millar Neil S. , Liu Zewen 
Published: August 2016

AbstractInsecticide resistance can arise from a variety of mechanisms, including changes to the target site, but is often associated with substantial fitness costs to insects. Here we describe two resistance-associated target-site mutations that have synergistic and compensatory effects that combine to produce high and persistent levels of resistance to fipronil, an insecticide targeting on γ-aminobytyric acid (GABA) receptors. In Nilaparvata lugens, a major pest of rice crops in many parts of Asia, we have identified a single point mutation (A302S) in the GABA receptor RDL that has been identified previously in other species and which confers low levels of resistance to fipronil (23-fold) in N. lugans. In addition, we have identified a second resistance-associated RDL mutation (R300Q) that, in combination with A302S, is associated with much higher levels of resistance (237-fold). The R300Q mutation has not been detected in the absence of A302S in either laboratory-selected or field populations, presumably due to the high fitness cost associated with this mutation. Significantly, it appears that the A302S mutation is able to compensate for deleterious effects of R300Q mutation on fitness cost. These findings identify a novel resistance mechanism and may have important implications for the spread of insecticide resistance.