bluuebunny/crossref_metadata_2025_split huggingface dataset:
Cytokine cascade and networks among MSM HIV seroconverters: implications for early immunotherapy
Authors: Huang Xiaojie , Liu Xinchao , Meyers Kathrine , Liu Lihong , Su Bin , Wang Pengfei , Li Zhen , Li Lan , Zhang Tong , Li Ning , Chen Hui , Li Haiying , Wu Hao 
Published: November 2016

AbstractThe timing, intensity and duration of the cytokine cascade and reorganized interrelations in cytokine networks are not fully understood during acute HIV-1 infection (AHI). Using sequential plasma samples collected over three years post-infection in a cohort of MSM HIV-1 seroconvertors, we determined the early kinetics of cytokine levels during FiebigI-IV stages using Luminex-based multiplex assays. Cytokines were quantified and relationships between cytokines were assessed by Spearman correlation. Compared with HIV-negative MSM, HIV-infected individuals had significantly increased multiple plasma cytokines, including GM-CSF, IFN-α2, IL-12p70, IP-10 and VEGF, during both acute and chronic stages of infection. Furthermore, rapid disease progressors (RDPs) had earlier and more robust cytokine storms, compared with slow disease progressors (SDPs) (49.6 days vs. 74.9 days, respectively; 6.7-fold vs. 3.7-fold change of cytokines, respectively), suggesting the faster and stronger cytokine storm during AHI could promote disease progression. On the other hand, HIV-1 infection induced more interlocked cytokines network, establishing new strong correlations and imposing a higher rigidity. There were, respectively, 146 (44.9%) statistically significant correlations of cytokines in RDPs and 241 (74.2%) in SDPs (p < 0.001). This study suggests that immunomodulatory interventions aimed at controlling cytokine storm in AHI may be beneficial to slow eventual disease progression.
Fucose-containing fraction of Ling-Zhi enhances lipid rafts-dependent ubiquitination of TGFβ receptor degradation and attenuates breast cancer tumorigenesis
Authors: Tsao Shu-Ming , Hsu Hsien-Yeh 
Published: November 2016

AbstractGanoderma lucidum exerts antitumor activity, but the mechanism of G. lucidum polysaccharides on cancer is unclear. Here, we demonstrated that a fucose-containing fraction of Ling-Zhi (FFLZ) reduced tumor size and suppressed metastasis in vivo. Furthermore, FFLZ inhibited breast cancer cell migration and altered the epithelial-to-mesenchymal transition (EMT) phenotype. Transforming growth factor-β receptor (TGFR) pathways act as key mediators to promote tumor progression and metastasis. We found that FFLZ down-regulated TGFR and downstream signaling pathways, including the phosphorylation of Smad2/3 and the expression of Smad4. In an investigation of the underlying mechanisms, we found that FFLZ enhanced the Smurf2-dependent ubiquitination of TGFR by disrupting the balance of the lipid rafts, promoted the “re-localization” of the TGFR to the caveolae, and facilitated the degradation of TGFR. Together, our data indicated that FFLZ is associated with the inhibition of EMT and the prevention of metastasis by promoting ubiquitination-dependent TGFR degradation and abolishing TGFR signaling pathways. Moreover, the combination of FFLZ and trastuzumab synergistically inhibited the viability of certain trastuzumab-resistant human breast cancer cells. In summary, our current findings indicate that FFLZ is a potential therapeutic or dietary supplemental agent for cancer patients and that it functions via the caveolin-1/Smad7/Smurf2-dependent ubiquitin-mediated degradation of TGFR.
Activation of AMPKα mediates additive effects of solamargine and metformin on suppressing MUC1 expression in castration-resistant prostate cancer cells
Authors: Xiang SongTao , Zhang QiuHong , Tang Qing , Zheng Fang , Wu JingJing , Yang LiJun , Hann Swei Sunny 
Published: November 2016

AbstractProstate cancer is the second most common cause of cancer-related deaths worldwide. The mucin 1 (MUC1) oncoprotein is highly expressed in human prostate cancers with aggressive features. However, the role for MUC1 in occurrence and progression of castration-resistant prostate cancer (CRPC) remained elusive. In this study, we showed that solamargine, a major steroidal alkaloid glycoside, inhibited the growth of CRPC cells, which was enhanced in the presence of metformin. Furthermore, we found that solamargine increased phosphorylation of AMPKα, whereas reducing the protein expression and promoter activity of MUC1. A greater effect was observed in the presence of metformin. In addition, solamargine reduced NF-κB subunit p65 protein expression. Exogenously expressed p65 resisted solamargine-reduced MUC1 protein and promoter activity. Interestingly, exogenously expressed MUC1 attenuated solamargine-stimulated phosphorylation of AMPKα and, more importantly reversed solamargine-inhibited cell growth. Finally, solamargine increased phosphorylation of AMPKα, while inhibiting MUC1, p65 and tumor growth were observed in vivo. Overall, our results show that solamargine inhibits the growth of CRPC cells through AMPKα-mediated inhibition of p65, followed by reduction of MUC1 expression in vitro and in vivo. More importantly, metformin facilitates the antitumor effect of solamargine on CRPC cells.
Small Regulatory RNAs of Rickettsia conorii
Authors: Narra Hema P. , Schroeder Casey L. C. , Sahni Abha , Rojas Mark , Khanipov Kamil , Fofanov Yuriy , Sahni Sanjeev K. 
Published: November 2016

AbstractSmall regulatory RNAs comprise critically important modulators of gene expression in bacteria, yet very little is known about their prevalence and functions in Rickettsia species. R. conorii, the causative agent of Mediterranean spotted fever, is a tick-borne pathogen that primarily infects microvascular endothelium in humans. We have determined the transcriptional landscape of R. conorii during infection of Human Microvascular Endothelial Cells (HMECs) by strand-specific RNA sequencing to identify 4 riboswitches, 13 trans-acting (intergenic), and 22 cis-acting (antisense) small RNAs (termed ‘Rc_sR’s). Independent expression of four novel trans-acting sRNAs (Rc_sR31, Rc_sR33, Rc_sR35, and Rc_sR42) and known bacterial sRNAs (6S, RNaseP_bact_a, ffs, and α-tmRNA) was next confirmed by Northern hybridization. Comparative analysis during infection of HMECs vis-à-vis tick AAE2 cells revealed significantly higher expression of Rc_sR35 and Rc_sR42 in HMECs, whereas Rc_sR31 and Rc_sR33 were expressed at similar levels in both cell types. We further predicted a total of 502 genes involved in all important biological processes as potential targets of Rc_sRs and validated the interaction of Rc_sR42 with cydA (cytochrome d ubiquinol oxidase subunit I). Our findings constitute the first evidence of the existence of post-transcriptional riboregulatory mechanisms in R. conorii and interactions between a novel Rc_sR and its target mRNA.
High glucose upregulates BACE1-mediated Aβ production through ROS-dependent HIF-1α and LXRα/ABCA1-regulated lipid raft reorganization in SK-N-MC cells
Authors: Lee Hyun Jik , Ryu Jung Min , Jung Young Hyun , Lee Sei-Jung , Kim Jeong Yeon , Lee Sang Hun , Hwang In Koo , Seong Je Kyung , Han Ho Jae 
Published: November 2016

AbstractThere is an accumulation of evidence indicating that the risk of Alzheimer’s disease is associated with diabetes mellitus, an indicator of high glucose concentrations in blood plasma. This study investigated the effect of high glucose on BACE1 expression and amyloidogenesis in vivo, and we present details of the mechanism associated with those effects. Our results, using ZLC and ZDF rat models, showed that ZDF rats have high levels of amyloid-beta (Aβ), phosphorylated tau, BACE1, and APP-C99. In vitro result with mouse hippocampal neuron and SK-N-MC, high glucose stimulated Aβ secretion and apoptosis in a dose-dependent manner. In addition, high glucose increased BACE1 and APP-C99 expressions, which were reversed by a reactive oxygen species (ROS) scavenger. Indeed, high glucose increased intracellular ROS levels and HIF-1α expression, associated with regulation of BACE1 and Liver X Receptor α (LXRα). In addition, high glucose induced ATP-binding cassette transporter A1 (ABCA1) down-regulation, was associated with LXR-induced lipid raft reorganization and BACE1 localization on the lipid raft. Furthermore, silencing of BACE1 expression was shown to regulate Aβ secretion and apoptosis of SK-N-MC. In conclusion, high glucose upregulates BACE1 expression and activity through HIF-1α and LXRα/ABCA1-regulated lipid raft reorganization, leading to Aβ production and apoptosis of SK-N-MC.
Additive manufacturing of micrometric crystallization vessels and single crystals
Authors: Halevi Oded , Jiang Hui , Kloc Christian , Magdassi Shlomo 
Published: November 2016

AbstractWe present an all-additive manufacturing method that is performed at mild conditions, for the formation of organic single crystals at specific locations, without any photolithography prefabrication process. The method is composed of two steps; inkjet printing of a confinement frame, composed of a water soluble electrolyte. Then, an organic semiconductor solution is printed within the confinement to form a nucleus at a specific location, followed by additional printing, which led to the growth of a single crystal. The specific geometry of the confinement enables control of the specific locations of the single crystals, while separating the nucleation and crystal growth processes. By this method, we printed single crystals of perylene, which are suitable for the formation of OFETs. Moreover, since this method is based on a simple and controllable wet deposition process, it enables formation of arrays of single crystals at specific locations, which is a prerequisite for mass production of active organic elements on flexible substrates.
Enhanced critical-current in P-doped BaFe2As2 thin films on metal substrates arising from poorly aligned grain boundaries
Authors: Sato Hikaru , Hiramatsu Hidenori , Kamiya Toshio , Hosono Hideo 
Published: November 2016

AbstractThin films of the iron-based superconductor BaFe2(As1−xPx)2 (Ba122:P) were fabricated on polycrystalline metal-tape substrates with two kinds of in-plane grain boundary alignments (well aligned (4°) and poorly aligned (8°)) by pulsed laser deposition. The poorly aligned substrate is not applicable to cuprate-coated conductors because the in-plane alignment >4° results in exponential decay of the critical current density (Jc). The Ba122:P film exhibited higher Jc at 4 K when grown on the poorly aligned substrate than on the well-aligned substrate even though the crystallinity was poorer. It was revealed that the misorientation angles of the poorly aligned samples were less than 6°, which are less than the critical angle of an iron-based superconductor, cobalt-doped BaFe2As2 (~9°), and the observed strong pinning in the Ba122:P is attributed to the high-density grain boundaries with the misorientation angles smaller than the critical angle. This result reveals a distinct advantage over cuprate-coated conductors because well-aligned metal-tape substrates are not necessary for practical applications of the iron-based superconductors.
Binary colloidal crystals (BCCs) as a feeder-free system to generate human induced pluripotent stem cells (hiPSCs)
Authors: Wang Peng-Yuan , Hung Sandy Shen-Chi , Thissen Helmut , Kingshott Peter , Wong Raymond Ching-Bong 
Published: November 2016

AbstractHuman induced pluripotent stem cells (hiPSCs) are capable of differentiating into any cell type and provide significant advances to cell therapy and regenerative medicine. However, the current protocol for hiPSC generation is relatively inefficient and often results in many partially reprogrammed colonies, which increases the cost and reduces the applicability of hiPSCs. Biophysical stimulation, in particular from tuning cell-surface interactions, can trigger specific cellular responses that could in turn promote the reprogramming process. In this study, human fibroblasts were reprogrammed into hiPSCs using a feeder-free system and episomal vectors using novel substrates based on binary colloidal crystals (BCCs). BCCs are made from two different spherical particle materials (Si and PMMA) ranging in size from nanometers to micrometers that self-assemble into hexagonal close-packed arrays. Our results show that the BCCs, particularly those made from a crystal of 2 μm Si and 0.11 μm PMMA particles (2SiPM) facilitate the reprogramming process and increase the proportion of fully reprogrammed hiPSC colonies, even without a vitronectin coating. Subsequent isolation of clonal hiPSC lines demonstrates that they express pluripotent markers (OCT4 and TRA-1-60). This proof-of-concept study demonstrates that cell reprogramming can be improved on substrates where surface properties are tailored to the application.
IGF-1/IGF-1R/hsa-let-7c axis regulates the committed differentiation of stem cells from apical papilla
Authors: Ma Shu , Liu Genxia , Jin Lin , Pang Xiyao , Wang Yanqiu , Wang Zilu , Yu Yan , Yu Jinhua 
Published: November 2016

AbstractInsulin-like growth factor-1 (IGF-1) and its receptor IGF-1R play a paramount role in tooth/bone formation whilehsa-let-7cactively participates in the osteogenic differentiation of mesenchymal stem cells. However, the interaction between IGF-1/IGF-1R andhsa-let-7con the committed differentiation of stem cells from apical papilla (SCAPs) remains unclear. In this study, human SCAPs were isolated and treated with IGF-1 andhsa-let-7cover/low-expression viruses. The odonto/osteogenic differentiation of these stem cells and the involvement of mitogen-activated protein kinase (MAPK) pathway were subsequently investigated. Alizarin red staining showed thathsa-let-7clow-expression can significantly promote the mineralization of IGF-1 treated SCAPs, whilehsa-let-7cover-expression can decrease the calcium deposition of IGF-1 treated SCAPs. Western blot assay and real-time reverse transcription polymerase chain reaction further demonstrated that the expression of odonto/osteogenic markers (ALP, RUNX2/RUNX2, OSX/OSX, OCN/OCN, COL-I/COL-I, DSPP/DSP, and DMP-1/DMP-1) in IGF-1 treated SCAPs were significantly upregulated inLet-7c-low group. On the contrary,hsa-let-7cover-expression could downregulate the expression of these odonto/osteogenic markers. Moreover, western blot assay showed that the JNK and p38 MAPK signaling pathways were activated inLet-7c-low SCAPs but inhibited inLet-7c-over SCAPs. Together, the IGF-1/IGF-1R/hsa-let-7caxis can control the odonto/osteogenic differentiation of IGF-1-treated SCAPs via the regulation of JNK and p38 MAPK signaling pathways.
Women Who Sleep More Have Reduced Risk of Peptic Ulcer Disease; Korean National Health and Nutrition Examination Survey (2008–2009)
Authors: Ko Sun-Hye , Baeg Myong Ki , Ko Seung Yeon , Han Kyung-Do 
Published: November 2016

AbstractSleep is integral to life and sleep duration is important in sleep quality, physical, and psychological health. Disturbances in sleep duration have been associated with increased risk of metabolic disorders, hypertension, and overall mortality. Sleep disturbance has also been linked with various gastrointestinal disorders. However, the association between sleep and peptic ulcer disease (PUD) has not been evaluated. We investigated the association between sleep duration and PUD. Subjects were included from the fifth Korean National Health and Nutrition Examination Survey conducted from 2008–2009. Individuals with PUD were defined as those with a physician diagnosis of PUD. Daily sleep duration was established by asking participants the amount of time that they slept per day. Multiple logistic regression models were used to evaluate the association of PUD and sleep duration. This study included 14,290 participants (8,209 women). The prevalence of PUD was 5.7% and was higher in men (6.8%) than in women (4.9%). Women who slept ≥9 hours were significantly less likely to have PUD compared to women who slept 7 hours. In men, longer sleep duration (≥9 hours) had a tendency toward PUD prevention. Our results suggest that longer sleep duration may play a protective role for PUD development.
Three-dimensional broadband acoustic illusion cloak for sound-hard boundaries of curved geometry
Authors: Kan Weiwei , Liang Bin , Li Ruiqi , Jiang Xue , Zou Xin-ye , Yin Lei-lei , Cheng Jianchun 
Published: November 2016

AbstractAcoustic illusion cloaks that create illusion effects by changing the scattered wave have many potential applications in a variety of scenarios. However, the experimental realization of generating three-dimensional (3D) acoustic illusions under detection of broadband signals still remains challenging despite the paramount importance for practical applications. Here we report the design and experimental demonstration of a 3D broadband cloak that can effectively manipulate the scattered field to generate the desired illusion effect near curved boundaries. The designed cloak simply comprises positive-index anisotropic materials, with parameters completely independent of either the cloaked object or the boundary. With the ability of manipulating the scattered field in 3D space and flexibility of applying to arbitrary geometries, our method may take a major step toward the real world application of acoustic cloaks and offer the possibilities of building advanced acoustic devices with versatile functionalities.
Impacts of brown carbon from biomass burning on surface UV and ozone photochemistry in the Amazon Basin
Authors: Mok Jungbin , Krotkov Nickolay A. , Arola Antti , Torres Omar , Jethva Hiren , Andrade Marcos , Labow Gordon , Eck Thomas F. , Li Zhanqing , Dickerson Russell R. , Stenchikov Georgiy L. , Osipov Sergey , Ren Xinrong 
Published: November 2016

AbstractThe spectral dependence of light absorption by atmospheric particulate matter has major implications for air quality and climate forcing, but remains uncertain especially in tropical areas with extensive biomass burning. In the September-October 2007 biomass-burning season in Santa Cruz, Bolivia, we studied light absorbing (chromophoric) organic or “brown” carbon (BrC) with surface and space-based remote sensing. We found that BrC has negligible absorption at visible wavelengths, but significant absorption and strong spectral dependence at UV wavelengths. Using the ground-based inversion of column effective imaginary refractive index in the range 305–368 nm, we quantified a strong spectral dependence of absorption by BrC in the UV and diminished ultraviolet B (UV-B) radiation reaching the surface. Reduced UV-B means less erythema, plant damage, and slower photolysis rates. We use a photochemical box model to show that relative to black carbon (BC) alone, the combined optical properties of BrC and BC slow the net rate of production of ozone by up to 18% and lead to reduced concentrations of radicals OH, HO2, and RO2 by up to 17%, 15%, and 14%, respectively. The optical properties of BrC aerosol change in subtle ways the generally adverse effects of smoke from biomass burning.
A New Unusual Ice-induced Sedimentary Structure: the Silt Mushroom
Authors: Jianhua Zhong , Liangtian Ni , Ningliang Sun , Chuang Liu , Bing Hao , Mengchun Cao , xin Chen , Ke Luo , Shengxin Liu , Leitong Huang , Guanqun Yang , Shaojie Wang , Feifei Su , Xuejing He , Yanqiu Xue 
Published: November 2016

AbstractUpon channel bars or point bars within the lows of the Yellow River, a new sedimentary structure, named ‘silt mushroom’, has been observed. The process of their formation is interpreted to be via the ice process. The name, the silt mushroom comes from their figurative form. This is because they look somewhat similar to mushroom’s in size and shape; being in the range of 1 to 10 cm in diameter, with the medium 3–5 cm, and on average 10 cm in height, occuring generally in groups, and occasionally in isolation in relatively soft silt. They develop in the transition from winter to spring, and are convincingly related to ice processes. Ice-induced silt mushrooms are best examined in association with the many other newly discovered ice-induced sedimentary structures (over 20 kinds). Clearly, up to now, ice processes have been significantly underestimated. With the substantial discovery of the ice-induced silt mushroom, it opens up new questions. This is because its structure mirrors the same sedimentary structures found in rocks, questioning their genesis, and sedimentary environment analysis. This achievement is significant not only in sedimentology, but also in palaeogeography, palaeoclimate, geological engineering, hydraulics and fluviology.
Graphlet characteristics in directed networks
Authors: Trpevski Igor , Dimitrova Tamara , Boshkovski Tommy , Stikov Nikola , Kocarev Ljupcho 
Published: November 2016

AbstractGraphlet analysis is part of network theory that does not depend on the choice of the network null model and can provide comprehensive description of the local network structure. Here, we propose a novel method for graphlet-based analysis of directed networks by computing first the signature vector for every vertex in the network and then the graphlet correlation matrix of the network. This analysis has been applied to brain effective connectivity networks by considering both direction and sign (inhibitory or excitatory) of the underlying directed (effective) connectivity. In particular, the signature vectors for brain regions and the graphlet correlation matrices of the brain effective network are computed for 40 healthy subjects and common dependencies are revealed. We found that the signature vectors (node, wedge, and triangle degrees) are dominant for the excitatory effective brain networks. Moreover, by considering only those correlations (or anti correlations) in the correlation matrix that are significant (>0.7 or <−0.7) and are presented in more than 60% of the subjects, we found that excitatory effective brain networks show stronger causal (measured with Granger causality) patterns (G-causes and G-effects) than inhibitory effective brain networks.
Noscapine targets EGFRp-Tyr1068 to suppress the proliferation and invasion of MG63 cells
Authors: He Ming , Jiang Linlin , Ren Zhaozhou , Wang Guangbin , Wang Jiashi 
Published: November 2016

AbstractOsteosarcoma, the most common primary malignant bone tumor, usually arises in the metaphysis of long bones. Amplification and mutation of the epidermal growth factor receptor (EGFR) gene represent signature genetic abnormalities encountered in osteosarcoma. Noscapine is a benzylisoquinoline alkaloid derived from the opium poppy Papaver somniferum. Recently several studies have suggested its anti-cancer effect in melanoma, ovarian cancer, gliomas, breast cancer, lung cancer, and colon cancer. However, the underlying molecular mechanism for its anti-cancer effect still remains unclear. In this paper, we found the mechanism of noscapine effectively suppressed proliferation and invasion of MG63 cell line by inhibiting the phosphorylation of EGFR and its downstream pathway.
Red cells’ dynamic morphologies govern blood shear thinning under microcirculatory flow conditions
Authors: Lanotte Luca , Mauer Johannes , Mendez Simon , Fedosov Dmitry A. , Fromental Jean-Marc , Claveria Viviana , Nicoud Franck , Gompper Gerhard , Abkarian Manouk 
Published: November 2016

Significance
Our work reveals rich RBCs’ dynamic morphologies which govern blood shear thinning under microcirculatory flow conditions, contrary to the current paradigm assuming steady RBC orientation and membrane circulation. Our results suggest that any pathological change in RBCs’ local rheology will impact the onset of these morphological transitions and should play a key role in pathological blood flow.