bluuebunny/crossref_metadata_2025_split huggingface dataset:
Snapshot 3D Electron Imaging of Structural Dynamics
Authors: Chen Liu-Gu , Warner Jamie , Kirkland Angus I. , Chen Fu-Rong , Van Dyck Dirk 
Published: September 2017

AbstractIn order to understand the physical properties of materials it is necessary to determine the 3D positions of all atoms. There has been significant progress towards this goal using electron tomography. However, this method requires a relatively high electron dose and often extended acquisition times which precludes the study of structural dynamics such as defect formation and evolution. In this work we describe a method that enables the determination of 3D atomic positions with high precision from single high resolution electron microscopic images of graphene that show dynamic processes. We have applied this to the study of electron beam induced defect coalescence and to long range rippling in graphene. The latter strongly influences the mechanical and electronic properties of this material that are important for possible future applications.
Quantitative Phosphoproteomic Analysis Reveals Key Mechanisms of Cellular Proliferation in Liver Cancer Cells
Authors: Zhu Bo , He Quanze , Xiang Jingjing , Qi Fang , Cai Hao , Mao Jun , Zhang Chunhua , Zhang Qin , Li Haibo , Lu Lu , Wang Ting , Yu Wenbo 
Published: September 2017

AbstractUnderstanding the mechanisms of uncontrolled proliferation in cancer cells provides valuable insights into tumor development and is benefit for discovering efficient methods in cancer treatment. In this study, we identified and quantified 2,057 phosphoproteins and 9,824 unique phosphosites in three liver cell lines with high (QGY, Hep3B) and low (L02) proliferative potentials and disclosed the wide variations in phosphorylation sites and levels among them. We found that the number of identified phosphoproteins and phosphosites in these cells were negatively correlated with their proliferative abilities. The function analysis suggested that the aberrant phosphorylation of SR proteins and activation of MAPK pathway might be two critical factors to promote cancer cell proliferation. Meanwhile, the phosphorylation status of mini-chromosome maintenance (MCM) and nuclear pore (NPC) complexes are significantly different between cell lines with high and low proliferative potentials. Furthermore, the phosphosites targeted by kinase families of CDK, STE and HIPK in the proteins coded by cancer driver genes showed distinct profiles between caner and normal cell lines. These results present key phosphorylation networks involving in abnormal proliferation of cancer cells and uncovered potential molecular markers for estimating the proliferation ability of liver cancer cells.
Quantitative proteomics of Sf21 cells during Baculovirus infection reveals progressive host proteome changes and its regulation by viral miRNA
Authors: Nayyar Nishtha , Kaur Inderjeet , Malhotra Pawan , Bhatnagar Raj K. 
Published: September 2017

AbstractSystem level knowledge of alterations in host is crucial to elucidate the molecular events of viral pathogenesis and to develop strategies to block viral establishment and amplification. Here, we applied quantitative proteomics approach to study global proteome changes in the host; Spodoptera frugiperda upon infection by a baculovirus, Spodoptera litura NPV at two stages i.e. 12 h and 72 h post infection. At 12 hpi, >95% of host proteins remained stable, however at 72 hpi, 52% host proteins exhibited downregulation of 2-fold or more. Functional analysis revealed significant upregulation of transposition and proteasomal machinery while translation, transcription, protein export and oxidative phosphorylation pathways were adversely affected. An assessment of perturbed proteome after viral infection and viral miRNA expression led to the identification of 117 genes that are potential targets of 10 viral miRNAs. Using miRNA mimics, we confirmed the down regulation of 9 host genes. The results comprehensively show dynamics of host responses after viral infection.
Tracking the tumor invasion front using long-term fluidic tumoroid culture
Authors: Aw Yong Koh Meng , Li Zida , Merajver Sofia D. , Fu Jianping 
Published: September 2017

AbstractThe analysis of invading leader cells at the tumor invasion front is of significant interest as these cells may possess a coordinated functional and molecular phenotype which can be targeted for therapy. However, such analyses are currently limited by available technologies. Here, we report a fluidic device for long-term three-dimensional tumoroid culture which recapitulated the tumor invasion front, allowing for both quantification of invasive potential and molecular characterization of invasive leader cells. Preliminary analysis of the invasion front indicated an association with cell proliferation and higher expression of growth differentiation factor 15 (GDF15). This device makes real-time tracking of invading leader cell phenotypes possible and has potential for use with patient material for clinical risk stratification and personalized medicine.
Mapping a Type-specific Epitope by Monoclonal Antibody against VP3 Protein of Duck Hepatitis A Type 1 Virus
Authors: Wu Xiaoying , Zhang Tingting , Meng Fanyi , Guo Dongchun , Yin Xiuchen , Wulin Shaozhou , Li Chenxi , Zhang Qingshan , Liu Ming , Zhang Yun 
Published: September 2017

AbstractDuck hepatitis A subtype 1 virus (DHAV-1) infection causes high mortality in ducklings, resulting in significant losses to duck industries. VP3 is a structural protein of DHAV-1. However, B-cell epitopes on VP3 have not been investigated. To stimulate VP3 antibody response, eukaryotic expression plasmid pCI-neo-VP3 was constructed and used as DNA immunogen to prepare mAbs. Western blot showed that 25.5 kDa VP3 could be detected by mAbs in duck embryo fibroblast (DEF) cells transfected with pCI-neo-VP3. Immunofluorescence assay showed that mAbs could specifically bind to DEF cells infected with DHAV-1. DAPI staining indicated that VP3 localizes to the cytoplasm and nucleus of DHAV-1 infected DEF. With neutralizing mAb 3B7, minimal epitope PSNI was mapped. Sequence alignment indicated that 205PSNI208 is highly conserved among DHAV-1, but different from those of DHAV-2 and DHAV-3. Epitope peptide reacted specifically with DHAV-1-positive duck sera by dot blotting, revealing PSNI is DHAV-1 type-specific epitope and the importance of these amino acids in antibody-epitope binding reactivity. These findings provided useful information for understanding the antigenicity of VP3 and might be valuable in the development of epitope-based vaccine or diagnostic kit for DHAV-1 infection and provide insights for understanding the pathogenesis of DHAV-1.
SOCS2 Binds to and Regulates EphA2 through Multiple Mechanisms
Authors: Pilling Carissa , Cooper Jonathan A. 
Published: September 2017

AbstractSuppressors of cytokine signaling (SOCS) proteins inhibit signaling by serving as substrate receptors for the Cullin5-RING E3 ubiquitin ligase (CRL5) and through a variety of CRL5-independent mechanisms. CRL5, SOCS2 and SOCS6 are implicated in suppressing transformation of epithelial cells. We identified cell proteins that interact with SOCS2 and SOCS6 using two parallel proteomics techniques: BioID and Flag affinity purification mass spectrometry. The receptor tyrosine kinase ephrin type-A receptor 2 (EphA2) was identified as a SOCS2-interacting protein. SOCS2-EphA2 binding requires the SOCS2 SH2 domain and EphA2 activation loop autophosphorylation, which is stimulated by Ephrin A1 (EfnA1) or by phosphotyrosine phosphatase inhibition. Surprisingly, EfnA1-stimulated EphA2-SOCS2 binding is delayed until EphA2 has been internalized into endosomes. This suggests that SOCS2 binds to EphA2 in the context of endosomal membranes. We also found that SOCS2 overexpression decreases steady state levels of EphA2, consistent with increased EphA2 degradation. This effect is indirect: SOCS2 induces EfnA1 expression, and EfnA1 induces EphA2 down-regulation. Other RTKs have been reported to bind, and be regulated by, over-expressed SOCS proteins. Our data suggest that SOCS protein over-expression may regulate receptor tyrosine kinases through indirect and direct mechanisms.
Cytotoxic response against Epstein Barr virus coexists with diffuse large B-cell lymphoma tolerogenic microenvironment: clinical features and survival impact
Authors: Cohen Melina , Vistarop Aldana G. , Huaman Fuad , Narbaitz Marina , Metrebian Fernanda , De Matteo Elena , Preciado María V. , Chabay Paola A. 
Published: September 2017

AbstractEpstein–Barr Virus (EBV) is present in neoplastic cells of 15% of Asian and Latin-American diffuse large B-cell lymphoma (DLBCL) patients. Even though a tolerogenic microenvironment was recently described in DLBCL, little is known concerning immunomodulatory features induced by EBV. As suggested in Hodgkin lymphoma, EBV-specific cytotoxic T-cells are increased but showing immune exhaustion features. Hence, host immunity suppression may play a critical role in tumor progression. This study aimed to investigate, whether an association between tumor microenvironment features and EBV presence is taking place, and its clinical correlate. The incidence of EBV+DLBCL NOS was 12.6% in this cohort. Cytokine and chemokine transcripts expression and immunophenotype analysis showed that EBV infection was associated with increased gene expression of immunosuppressive cytokine (IL-10) together with increased CD8+ T-cells and granzyme B+ cytotoxic effector cells. However, this specific response coexists with a tolerogenic milieu, by PD-1 expression, in EBV+ and EBV−DLBCL cases. High PD-1+ cell counts, EBV presence and low CCL22 expression were associated with worse survival, supporting our hypothesis that EBV-specific response is mounted locally and its inhibition by, for example PD-1+ cells, may negatively affect outcome. The better understanding of the interplay between lymphoma cells and microenvironment in a viral framework could thereby facilitate the discovery of new targets for innovative anti-lymphoma treatment strategies.
Gender-based differences in host behavior and gut microbiota composition in response to high fat diet and stress in a mouse model
Authors: Bridgewater Laura C. , Zhang Chenhong , Wu Yanqiu , Hu Weiwei , Zhang Qianpeng , Wang Jing , Li Shengtian , Zhao Liping 
Published: September 2017

AbstractObesity is associated with a high prevalence of mood disorders such as anxiety and depression. Both stress and high fat diet can alter the gut microbiota and contribute to obesity. To examine the interrelationships between obesity, stress, gut microbiota and mood disorders, obesity was induced in mice using a high fat diet, and the mice were subsequently stressed using a chronic unpredictable mild stress protocol. During the experiment, the composition of the gut microbiota was analyzed by 16 S rRNA gene high-throughput sequencing, and anxiety-like behaviors were measured. The results revealed distinct gender differences in the impacts of obesity and stress on anxiety-like behaviors, activity levels, and composition of the gut microbiota. Male mice were more vulnerable to the anxiogenic effects of the high fat diet, and obese male mice showed decreased locomotion activity in response to stress whereas obese female mice did not. In females, stress caused the gut microbiota of lean mice to more closely resemble that of obese mice. Taken together, these results suggest the importance of considering gender as a biological variable in studies on the role of gut microbiota in obesity-related mood disorders.
The Deposition and Accumulation of Microplastics in Marine Sediments and Bottom Water from the Irish Continental Shelf
Authors: Martin Jake , Lusher Amy , Thompson Richard C. , Morley Audrey 
Published: September 2017

AbstractMicroplastics are widely dispersed throughout the marine environment. An understanding of the distribution and accumulation of this form of pollution is crucial for gauging environmental risk. Presented here is the first record of plastic contamination, in the 5 mm–250 μm size range, of Irish continental shelf sediments. Sixty-two microplastics were recovered from 10 of 11 stations using box cores. 97% of recovered microplastics were found to reside shallower than 2.5 cm sediment depth, with the area of highest microplastic concentration being the water-sediment interface and top 0.5 cm of sediments (66%). Microplastics were not found deeper than 3.5 ± 0.5 cm. These findings demonstrate that microplastic contamination is ubiquitous within superficial sediments and bottom water along the western Irish continental shelf. Results highlight that cores need to be at least 4–5 cm deep to quantify the standing stock of microplastics within marine sediments. All recovered microplastics were classified as secondary microplastics as they appear to be remnants of larger items; fibres being the principal form of microplastic pollution (85%), followed by broken fragments (15%). The range of polymer types, colours and physical forms recovered suggests a variety of sources. Further research is needed to understand the mechanisms influencing microplastic transport, deposition, resuspension and subsequent interactions with biota.
Effects of low-intensity pulsed electromagnetic fields on bone microarchitecture, mechanical strength and bone turnover in type 2 diabetic db/db mice
Authors: Li Jianjun , Zeng Zhaobin , Zhao Yantao , Jing Da , Tang Chuhua , Ding Yin , Feng Xue 
Published: September 2017

AbstractType 2 diabetic patients have impaired bone quality, leading to increased fracture risk. Substantial evidence demonstrates that pulsed electromagnetic fields (PEMF) could resist osteopenia/osteoporosis induced by estrogen deficiency and disuse. However, the effects of PEMF on osteopenia/osteoporosis associated with diabetes, especially for more prevalent type 2 diabetes, remain poorly understood. We herein investigated the skeletal effects and mechanisms of PEMF (15 Hz, 20 Gs) on leptin receptor-deficient db/db mice with typical type 2 diabetic symptoms. Our µCT results showed that 12-week PEMF exposure significantly improved both cancellous and cortical bone microarchitecture in db/db mice. Three-point bending and biomechanical indentation testing demonstrated that PEMF improved whole-bone structural properties and tissue-level material properties in db/db mice. PEMF significantly promoted bone formation in db/db mice evidenced by increased serum osteocalcin and bone mineral apposition rate, whereas PEMF exerted no observable alteration in bone resorption. Real-time PCR showed that PEMF upregulated tibial gene expression of osteoblastogenesis-related of canonical Wnt/β-catenin signaling but not osteoclastogenesis-related RANKL-RANK signaling in db/db mice. Our findings demonstrate that PEMF improved bone quantity and quality with obvious anabolic activities in db/db mice, and imply that PEMF might become a clinically applicable treatment modality for improving bone quality in type 2 diabetic patients.
Changes in specific leaf area of dominant plants in temperate grasslands along a 2500-km transect in northern China
Authors: Liu Mengzhou , Wang Zhengwen , Li Shanshan , Lü Xiaotao , Wang Xiaobo , Han Xingguo 
Published: September 2017

AbstractSpecific leaf area (SLA) is a key trait with great ecological importance as it correlates with whole plant growth. We aimed to investigate how SLA varies with environmental factors at a geographical scale in temperate grasslands. We measured SLA and mass-based leaf nitrogen content (Nmass) of four dominant plant genera along a 2500 km climatic gradient in northern China grassland, and correlated SLA with mean annual precipitation (MAP), mean annual temperature (MAT), soil nitrogen concentration (soil N), soil C:N and Nmass. Climate accounts much more for SLA variation than soil variables for Stipa, Cleistogens and Carex. SLA of Stipa is negatively associated with MAP and soil N, while positively with MAT, but Cleistogenes and Carex show the opposite. For Leymus, soil N promotes SLA and accounts for largest fraction of SLA variation. Overall, SLA was positively correlated with Nmass in semi-arid regions, but not significant in arid regions. The genus-dependent responses of SLA may have consequences on ecosystem functioning, thus may help to predict the community composition and ecosystem functions under future climate scenario. The finding of SLA-Nmass trade-off and its susceptibility to precipitation will advance our understanding on plant resource use strategies.
Moral judgment modulation by disgust priming via altered fronto-temporal functional connectivity
Authors: Lim Julian , Kurnianingsih Yoanna A. , Ong How Hwee , Mullette-Gillman O’Dhaniel A. 
Published: September 2017

AbstractMoral judgments are not just the product of conscious reasoning, but also involve the integration of social and emotional information. Irrelevant disgust stimuli modulate moral judgments, with individual sensitivity determining the direction and size of effects across both hypothetical and incentive-compatible experimental designs. We investigated the neural circuitry underlying this modulation using fMRI in 19 individuals performing a moral judgment task with subliminal priming of disgust facial expressions. Our results indicate that individual changes in moral acceptability due to priming covaried with individual differences in activation within the dorsomedial prefrontal cortex (dmPFC). Further, whole-brain analyses identified changes in functional connectivity between the dmPFC and the temporal-parietal junction (TPJ). High sensitivity individuals showed enhanced functional connectivity between the TPJ and dmPFC, corresponding with deactivation in the dmPFC, and rating the moral dilemmas as more acceptable. Low sensitivity individuals showed the opposite pattern of results. Post-hoc, these findings replicated in the dorsal anterior cingulate cortex (daMCC), an adjacent region implicated in converting between objective and subjective valuation. This suggests a specific computational mechanism – that disgust stimuli modulate moral judgments by altering the integration of social information to determine the subjective valuation of the considered moral actions.
The formation of nanocrystalline ZrO2 nuclei in a Li2O-Al2O3-SiO2 glass – a combined XANES and TEM study
Authors: Kleebusch Enrico , Patzig Christian , Krause Michael , Hu Yongfeng , Höche Thomas , Rüssel Christian 
Published: September 2017

AbstractThe high economic importance of glass ceramics based on Li2O/Al2O3/SiO2 (LAS) is mainly due to their low coefficients of thermal expansion (CTE), which make these materials suitable candidates for a number of applications. The exact mechanism of the crystallization processes in LAS glasses is still not fully understood. The present work focuses on the formation and development of nanocrystalline ZrO2 within an LAS base composition which contains only ZrO2 as nucleating agent. Using a combination of transmission electron microscopy and X-ray absorption spectroscopy techniques, the temporal evolution of the ZrO2 nanocrystal formation is described. It is found that the formation of ZrO2 is initiated by liquid-liquid phase separation droplets with high Zr content, which eventually evolve into the nanocrystalline ZrO2 precipitations. This process is accompanied by a gradual change of the coordination of the tetravalent Zr ions from sixfold in the glass to eightfold in the crystals. The diameters of the ZrO2 crystals stay well below 4 nm, even at late stages. The degree of crystallization at each step of the crystallization process is deduced, and from that, the Avrami coefficient n is determined to be n ≈ 1, which describes a barrier-limited crystal growth process.
Biological effects of dosing aerobic exercise and neuromuscular electrical stimulation in rats
Authors: Dalise Stefania , Cavalli Loredana , Ghuman Harmanvir , Wahlberg Brendon , Gerwig Madeline , Chisari Carmelo , Ambrosio Fabrisia , Modo Michel 
Published: September 2017

AbstractAerobic exercise (AE) and non-aerobic neuromuscular electric stimulation (NMES) are common interventions used in physical therapy. We explored the dose-dependency (low, medium, high) of these interventions on biochemical factors, such as brain derived neurotrophic growth factor (BDNF), vascular endothelial growth factor-A (VEGF-A), insulin-like growth factor-1 (IGF-1) and Klotho, in the blood and brain of normal rats, as well as a treadmill-based maximum capacity test (MCT). A medium dose of AE produced the most improvement in MCT with dose-dependent changes in Klotho in the blood. A dose-dependent increase of BDNF was evident following completion of an NMES protocol, but there was no improvement in MCT performance. Gene expression in the hippocampus was increased after both AE and NMES, with IGF-1 being a signaling molecule that correlated with MCT performance in the AE conditions, but also highly correlated with VEGF-A and Klotho. Blood Klotho levels can serve as a biomarker of therapeutic dosing of AE, whereas IGF-1 is a key molecule coupled to gene expression of other molecules in the hippocampus. This approach provides a translatable paradigm to investigate the mode and mechanism of action of interventions employed in physical therapy that can improve our understanding of how these factors change under pathological conditions.
The Experimental Demonstration of High Efficiency Interaction-free Measurement for Quantum Counterfactual-like Communication
Authors: Liu Chao , Liu Jinhong , Zhang Junxiang , Zhu Shiyao 
Published: September 2017

AbstractWe present an interaction-free measurement with quantum Zeno effect and a high efficiency η = 74.6% ± 0.15%. As a proof-of-principle demonstration, this measurement can be used to implement a quantum counterfactual-like communication protocol. Instead of a single photon state, we use a coherent light as the input source and show that the output agrees with the proposed quantum counterfactual communication protocol according to Salih et al. Although the counterfactuality is not achieved due to the presence of a few photons in the public channel, we show that the signal light is nearly absent in the public channel, which exhibits a proof-of-principle quantum counterfactual-like property of communication.
Genome-wide association study Identified multiple Genetic Loci on Chilling Resistance During Germination in Maize
Authors: Hu Guanghui , Li Zhao , Lu Yuncai , Li Chunxia , Gong Shichen , Yan Shuqin , Li Guoliang , Wang Mingquan , Ren Honglei , Guan Haitao , Zhang Zhengwei , Qin Dongling , Chai Mengzhu , Yu Juping , Li Yu , Yang Deguang , Wang Tianyu , Zhang Zhiwu 
Published: September 2017

AbstractMaize (Zea mays, L.) cultivation has expanded greatly from tropical to temperate zones; however, its sensitivity to chilling often results in decreased germination rates, weak seedlings with reduced survival rates, and eventually lower yields. We conducted germination tests on the maize-282-diverse-panel (282 inbred lines) under normal (25 °C) and chilling (8 °C) conditions. Three raw measurements of germination were recorded under each condition: 1) germination rate, 2) days to 50% germination, and 3) germination index. Three relative traits were derived as indicators of cold-tolerance. By using the 2,271,584 single nucleotide polymorphisms (SNPs) on the panel from previous studies, and genome-wide association studies by using FarmCPU R package to identify 17 genetic loci associated with cold tolerance. Seven associated SNPs hit directly on candidate genes; four SNPs were in high linkage disequilibrium with candidate genes within 366 kb. In total, 18 candidate genes were identified, including 10 candidate genes supported by previous QTL studies and five genes supported by previous gene cloning studies in maize, rice, and Arabidopsis. Three new candidate genes revealed by two associated SNPs were supported by both QTL analyses and gene cloning studies. These candidate genes and associated SNPs provide valuable resources for future studies to develop cold-tolerant maize varieties.