bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sac7 and Rho1 regulate the white-to-opaque switching in Candida albicans
Authors: Yang Siwy Ling , Zeng Guisheng , Chan Fong Yee , Wang Yan-Ming , Yang Dongliang , Wang Yue 
Published: January 2018

AbstractCandida albicans cells homozygous at the mating-type locus stochastically undergo the white-to-opaque switching to become mating-competent. This switching is regulated by a core circuit of transcription factors organized through interlocking feedback loops around the master regulator Wor1. Although a range of distinct environmental cues is known to induce the switching, the pathways linking the external stimuli to the central control mechanism remains largely unknown. By screening a C. albicans haploid gene-deletion library, we found that SAC7 encoding a GTPase-activating protein of Rho1 is required for the white-to-opaque switching. We demonstrate that Sac7 physically associates with Rho1-GTP and the constitutively active Rho1G18V mutant impairs the white-to-opaque switching while the inactive Rho1D124A mutant promotes it. Overexpressing WOR1 in both sac7Δ/Δ and rho1
G18V
cells suppresses the switching defect, indicating that the Sac7/Rho1 module acts upstream of Wor1. Furthermore, we provide evidence that Sac7/Rho1 functions in a pathway independent of the Ras/cAMP pathway which has previously been positioned upstream of Wor1. Taken together, we have discovered new regulators and a signaling pathway that regulate the white-to-opaque switching in the most prevalent human fungal pathogen C. albicans.
A novel microRNA, hsa-miR-6852 differentially regulated by Interleukin-27 induces necrosis in cervical cancer cells by downregulating the FoxM1 expression
Authors: Poudyal Deepak , Herman Andrew , Adelsberger Joseph W. , Yang Jun , Hu Xiaojun , Chen Qian , Bosche Marjorie , Sherman Brad T. , Imamichi Tomozumi 
Published: January 2018

AbstractWe have previously demonstrated that Interleukin-27 differentially regulates the expression of seven novel microRNAs. Here we elucidate the functional significance of these novel microRNAs. Of the seven microRNAs, over expression of miRNA-6852 (miR-SX4) mimic induces cell cycle arrest at G2/M phase and induces necrosis in HEK293 and panel of cervical cancer cells (Human Papilloma Virus (HPV) infected cell lines; HeLa, CaSki and SiHa cells). To define the mechanism of the miR-SX4-mediated G2/M arrest, a microarray gene chip array and western blot analysis were performed. FoxM1, a transcription factor is identified as a key protein down-regulated by miR-SX4, even though the miR-SX4 does not target 3’UTR of FoxM1. Knock down of FoxM1 using si-RNA demonstrate that FoxM1 silenced cell induces G2/M cell cycle arrest and necrosis. Our data demonstrated for the first time that miR-SX4 could be a potent anti-cancer microRNA.
Loss induced coherent combining in InP-Si3N4 hybrid platform
Authors: Zhu Yeyu , Zhao Yunsong , Zhu Lin 
Published: January 2018

AbstractLoss, as a time-reversed counterpart of gain, can also be used to control lasing in an optical system with coupled cavities. In this study, by manipulating mirror losses at different output ports of coupled Fabry-Perot cavities, an integrated coherently combined laser system is proposed and experimentally demonstrated in the InP-Si3N4 hybrid platform. Two InP-based reflective semiconductor amplifiers are coherently combined through an adiabatic 50:50 directional coupler in silicon nitride. The combining efficiency is ~92% at ~2× threshold. The novel system not only realizes the miniaturization of coherent laser beam combining but also provides a chip-scale platform to study the coherent coupling between coupled laser cavities.
A high throughput approach for the generation of orthogonally interacting protein pairs
Authors: Lawrie Justin , Song Xi , Niu Wei , Guo Jiantao 
Published: January 2018

AbstractIn contrast to the nearly error-free self-assembly of protein architectures in nature, artificial assembly of protein complexes with pre-defined structure and function in vitro is still challenging. To mimic nature’s strategy to construct pre-defined three-dimensional protein architectures, highly specific protein-protein interacting pairs are needed. Here we report an effort to create an orthogonally interacting protein pair from its parental pair using a bacteria-based in vivo directed evolution strategy. This high throughput approach features a combination of a negative and a positive selection. The newly developed negative selection from this work was used to remove any protein mutants that retain effective interaction with their parents. The positive selection was used to identify mutant pairs that can engage in effective mutual interaction. By using the cohesin-dockerin protein pair that is responsible for the self-assembly of cellulosome as a model system, we demonstrated that a protein pair that is orthogonal to its parent pair could be readily generated using our strategy. This approach could open new avenues to a wide range of protein-based assembly, such as biocatalysis or nanomaterials, with pre-determined architecture and potentially novel functions and properties.
Widespread persistent changes to temperature extremes occurred earlier than predicted
Authors: Li Chao , Fang Yuanyuan , Caldeira Ken , Zhang Xuebin , Diffenbaugh Noah S. , Michalak Anna M. 
Published: January 2018

AbstractA critical question for climate mitigation and adaptation is to understand when and where the signal of changes to climate extremes have persistently emerged or will emerge from the background noise of climate variability. Here we show observational evidence that such persistent changes to temperature extremes have already occurred over large parts of the Earth. We further show that climate models forced with natural and anthropogenic historical forcings underestimate these changes. In particular, persistent changes have emerged in observations earlier and over a larger spatial extent than predicted by models. The delayed emergence in the models is linked to a combination of simulated change (‘signal’) that is weaker than observed, and simulated variability (‘noise’) that is greater than observed. Over regions where persistent changes had not occurred by the year 2000, we find that most of the observed signal-to-noise ratios lie within the 16–84% range of those simulated. Examination of simulations with and without anthropogenic forcings provides evidence that the observed changes are more likely to be anthropogenic than nature in origin. Our findings suggest that further changes to temperature extremes over parts of the Earth are likely to occur earlier than projected by the current climate models.
An improved method of crafting a multi-electrode spiral cuff for the selective stimulation of peripheral nerves
Authors: Rozman Janez , Pečlin Polona , Ribarič Samo , Godec Matjaž , Burja Jaka 
Published: January 2018

AbstractThis article reviews an improved methodology and technology for crafting a multi-electrode spiral cuff for the selective activation of nerve fibres in particular superficial regions of a peripheral nerve. The analysis, structural and mechanical properties of the spot welds used for the interconnections between the stimulating electrodes and stainless-steel lead wires are presented. The cuff consisted of 33 platinum electrodes embedded within a self-curling 17-mm-long silicone spiral sheet with a nominal internal diameter of 2.5 mm. The weld was analyzed using scanning electron microscopy and nanohardness tests, while the interconnection was investigated using destructive load tests. The functionality of the cuff was tested in an isolated porcine vagus nerve. The results of the scanning electron microscopy show good alloying and none of the typical welding defects that occur between the wire and the platinum foil. The results of the destructive load tests show that the breaking loads were between 3.22 and 5 N. The results of the nanohardness testing show that the hardness of the weld was different for the particular sites on the weld sample. Finally, the results of the functional testing show that for different stimulation intensities both the compound action potential deflection and the shape are modulated.
Developmental pathways inferred from modularity, morphological integration and fluctuating asymmetry patterns in the human face
Authors: Quinto-Sánchez Mirsha , Muñoz-Muñoz Francesc , Gomez-Valdes Jorge , Cintas Celia , Navarro Pablo , Cerqueira Caio Cesar Silva de , Paschetta Carolina , de Azevedo Soledad , Ramallo Virginia , Acuña-Alonzo Victor , Adhikari Kaustubh , Fuentes-Guajardo Macarena , Hünemeier Tábita , Everardo Paola , de Avila Francisco , Jaramillo Claudia , Arias Williams , Gallo Carla , Poletti Giovani , Bedoya Gabriel , Bortolini Maria Cátira , Canizales-Quinteros Samuel , Rothhammer Francisco , Rosique Javier , Ruiz-Linares Andres , Gonzalez-Jose Rolando 
Published: January 2018

AbstractFacial asymmetries are usually measured and interpreted as proxies to developmental noise. However, analyses focused on its developmental and genetic architecture are scarce. To advance on this topic, studies based on a comprehensive and simultaneous analysis of modularity, morphological integration and facial asymmetries including both phenotypic and genomic information are needed. Here we explore several modularity hypotheses on a sample of Latin American mestizos, in order to test if modularity and integration patterns differ across several genomic ancestry backgrounds. To do so, 4104 individuals were analyzed using 3D photogrammetry reconstructions and a set of 34 facial landmarks placed on each individual. We found a pattern of modularity and integration that is conserved across sub-samples differing in their genomic ancestry background. Specifically, a signal of modularity based on functional demands and organization of the face is regularly observed across the whole sample. Our results shed more light on previous evidence obtained from Genome Wide Association Studies performed on the same samples, indicating the action of different genomic regions contributing to the expression of the nose and mouth facial phenotypes. Our results also indicate that large samples including phenotypic and genomic metadata enable a better understanding of the developmental and genetic architecture of craniofacial phenotypes.
Prebiotic formation of cyclic dipeptides under potentially early Earth conditions
Authors: Ying Jianxi , Lin Rongcan , Xu Pengxiang , Wu Yile , Liu Yan , Zhao Yufen 
Published: January 2018

AbstractCyclic dipeptides, also known as 2,5-diketopiperazines (DKPs), represent the simplest peptides that were first completely characterized. DKPs can catalyze the chiral selection of reactions and are considered as peptide precursors. The origin of biochemical chirality and synthesis of peptides remains abstruse problem believed to be essential precondition to origin of life. Therefore, it is reasonable to believe that the DKPs could have played a key role in the origin of life. How the formation of the DKPs through the condensation of unprotected amino acids in simulated prebiotic conditions has been unclear. Herein, it was found that cyclo-Pro-Pro could be formed directly from unprotected proline in the aqueous solution of trimetaphosphate (P3m) under mild condition with the yield up to 97%. Other amino acids were found to form proline-containing DKPs under the same conditions in spite of lower yield. During the formation process of these DKPs, P3m promotes the formation of linear dipeptides in the first step of the mechanism. The above findings are helpful and significant for understanding the formation of DKPs in the process of chemical evolution of life.
Pharmacological targeting of BET proteins attenuates radiation-induced lung fibrosis
Authors: Wang Jian , Zhou Fangzheng , Li Zhenyu , Mei Hong , Wang Ye , Ma Hong , Shi Liangliang , Huang Ai , Zhang Tao , Lin Zhenyu , Wu Gang 
Published: January 2018

AbstractRadiation-induced lung injury has restricted radiotherapy for thoracic cancer. The purpose of this study was to investigate the radioprotective effects of bromodomain and extra terminal (BET) inhibitor JQ1 in a murine model of pulmonary damage. Chest computed tomography (CT) was performed in a rat model after 20 Gy radiation of the right thorax. And histological evaluation and protein expressions of irradiated tissue were analyzed to confirm the potential anti-fibrosis effect of JQ1 and its underlying mechanisms. Moreover, colony formation assays were used to explore the effects of JQ1 on esophageal cancer Eca109 and breast cancer MCF7. JQ1 attenuated radiologic and histologic presentations of radiation-induced fibrosis, inflammatory reaction and pulmonary structural changes and the increase of Hounsfield units (HU) density and hydroxyproline content after radiation. Additionally, JQ1 suppressed BRD4, c-MYC, Collagen I, TGF-β, p-NF-κB p65, p-Smad2 and p-Smad3 expressions after irradiation, repressed proliferation and transdifferentiation of lung fibroblasts, and impaired clonogenic survival of thoracic cancer cells. Collectively, our study demonstrated for the first time that BET Bromodomain inhibitor JQ1 protected normal lung tissue after radiation, and exerted a radiosensitizing effect in thoracic cancer cells.
Reconstructing the gradient source position from steady-state fluxes to small receptors
Authors: Dobramysl Ulrich , Holcman David 
Published: January 2018

AbstractRecovering the position of a source from the fluxes of diffusing particles through small receptors allows a biological cell to determine its relative position, spatial localization and guide it to a final target. However, how a source can be recovered from point fluxes remains unclear. Using the Narrow Escape approach for an open domain, we compute the diffusion fluxes of Brownian particles generated by a steady-state gradient from a single source through small holes distributed on a surface in two dimensions. We find that the location of a source can be recovered when there are at least 3 receptors and the source is positioned no further than 10 cell radii away, but this condition is not necessary in a narrow strip. The present approach provides a computational basis for the first step of direction sensing of a gradient at a single cell level.
AlGaInP Red LEDs with Hollow Hemispherical Polystyrene Arrays
Authors: Cheng Wen-Ching , Huang Shih-Yung , Chen Yi-Jiun , Wang Chia-Sheng , Lin Hoang Yan , Wu Tzong-Ming , Horng Ray-Hua 
Published: January 2018

AbstractA hollow hemispherical polystyrene (HHPS) was fabricated to reduce total internal reflection in AlGaInP-based LEDs. At an injection current of 350 mA, the external quantum efficiencies of LED-I, LED-II, LED-III, and LED-IV are 20.92%, 24.65%, 27.28%, and 33.77% and the wall-plug efficiencies are 17.11%, 20%, 22.5%, and 27.33%, respectively. The enhanced performance is attributed to the light output power enhancement through the surface roughness, microlens-liked PS hemisphere, and scatter-liked HHPS array. In this paper, the rigorous coupled wave analysis (RCWA) numerical method was also conducted to demonstrate the HHPS array effectively enlarge the effective light cone.
Musical auditory stimulus acutely influences heart rate dynamic responses to medication in subjects with well-controlled hypertension
Authors: Martiniano Eli Carlos , Santana Milana Drumond Ramos , Barros Érico Luiz Damasceno , do Socorro da Silva Maria , Garner David Matthew , de Abreu Luiz Carlos , Valenti Vitor E. 
Published: January 2018

AbstractMusic can improve the efficiency of medical treatment when correctly associated with drug action, reducing risk factors involving deteriorating cardiac function. We evaluated the effect of musical auditory stimulus associated with anti-hypertensive medication on heart rate (HR) autonomic control in hypertensive subjects. We evaluated 37 well-controlled hypertensive patients designated for anti-hypertensive medication. Heart rate variability (HRV) was calculated from the HR monitor recordings of two different, randomly sorted protocols (control and music) on two separate days. Patients were examined in a resting condition 10 minutes before medication and 20 minutes, 40 minutes and 60 minutes after oral medication. Music was played throughout the 60 minutes after medication with the same intensity for all subjects in the music protocol. We noted analogous response of systolic and diastolic arterial pressure in both protocols. HR decreased 60 minutes after medication in the music protocol while it remained unchanged in the control protocol. The effects of anti-hypertensive medication on SDNN (Standard deviation of all normal RR intervals), LF (low frequency, nu), HF (high frequency, nu) and alpha-1 scale were more intense in the music protocol. In conclusion, musical auditory stimulus increased HR autonomic responses to anti-hypertensive medication in well-controlled hypertensive subjects.
A Survey of Validation Strategies for CRISPR-Cas9 Editing
Authors: Sentmanat Monica F. , Peters Samuel T. , Florian Colin P. , Connelly Jon P. , Pruett-Miller Shondra M. 
Published: January 2018

AbstractThe T7 endonuclease 1 (T7E1) mismatch detection assay is a widely used method for evaluating the activity of site-specific nucleases, such as the clustered regularly interspaced short palindromic repeats (CRISPR)-Cas9 system. To determine the accuracy and sensitivity of this assay, we compared the editing estimates derived by the T7E1 assay with that of targeted next-generation sequencing (NGS) in pools of edited mammalian cells. Here, we report that estimates of nuclease activity determined by T7E1 most often do not accurately reflect the activity observed in edited cells. Editing efficiencies of CRISPR-Cas9 complexes with similar activity by T7E1 can prove dramatically different by NGS. Additionally, we compared editing efficiencies predicted by the Tracking of Indels by Decomposition (TIDE) assay and the Indel Detection by Amplicon Analysis (IDAA) assay to that observed by targeted NGS for both cellular pools and single-cell derived clones. We show that targeted NGS, TIDE, and IDAA assays predict similar editing efficiencies for pools of cells but that TIDE and IDAA can miscall alleles in edited clones.
Galectin-13, a different prototype galectin, does not bind β-galacto-sides and forms dimers via intermolecular disulfide bridges between Cys-136 and Cys-138
Authors: Su Jiyong , Wang Yue , Si Yunlong , Gao Jin , Song Chenyang , Cui Linlin , Wu Runjie , Tai Guihua , Zhou Yifa 
Published: January 2018

AbstractDuring pregnancy, placental protein-13 (galectin-13) is highly expressed in the placenta and fetal tissue, and less so in maternal serum that is related to pre-eclampsia. To understand galectin-13 function at the molecular level, we solved its crystal structure and discovered that its dimer is stabilized by two disulfide bridges between Cys136 and Cys138 and six hydrogen bonds involving Val135, Val137, and Gln139. Native PAGE and gel filtration demonstrate that this is not a crystallization artifact because dimers also form in solution. Our biochemical studies indicate that galectin-13 ligand binding specificity is different from that of other galectins in that it does not bind β-galactosides. This is partly explained by the presence of Arg53 rather than His53 at the bottom of the carbohydrate binding site in a position that is crucial for interactions with β-galactosides. Mutating Arg53 to histidine does not re-establish normal β-galactoside binding, but rather traps cryoprotectant glycerol molecules within the ligand binding site in crystals of the R53H mutant. Moreover, unlike most other galectins, we also found that GFP-tagged galectin-13 is localized within the nucleus of HeLa and 293 T cells. Overall, galectin-13 appears to be a new type of prototype galectin with distinct properties.
Tensile stress effect on epitaxial BiFeO3 thin film grown on KTaO3
Authors: Bae In-Tae , Ichinose Tomohiro , Han Myung-Geun , Zhu Yimei , Yasui Shintaro , Naganuma Hiroshi 
Published: January 2018

AbstractComprehensive crystal structural study is performed for BiFeO3 (BFO) film grown on KTaO3 (KTO) substrate using transmission electron microscopy (TEM) and x-ray diffraction (XRD). Nano-beam electron diffraction (NBED) combined with structure factor calculation and high resolution TEM images clearly reveal that the crystal structure within BFO thin film is rhombohedral BFO, i.e., bulk BFO phase. Epitaxial relationship found by NBED indicates the BFO film grows in a manner that minimizes lattice mismatch with KTO. It further suggests BFO film is under slight biaxial tensile stress (~0.35%) along in-plane direction. XRD reveals BFO lattice is under compressive stress (~1.6%), along out-of-plane direction as a result of the biaxial tensile strain applied along in-plane direction. This leads to Poisson’s ratio of ~0.68. In addition, we demonstrate (1) why hexagonal notation rather than pseudocubic one is required for accurate BFO phase evaluation and (2) a new XRD method that shows how rhombohedral BFO can readily be identified among other phases by measuring a rhombohedral specific Bragg’s reflection.
Electrochemical and Friction Characteristics of Metallic Glass Composites at the Microstructural Length-scales
Authors: Ayyagari Aditya , Hasannaeimi Vahid , Arora Harpreet , Mukherjee Sundeep 
Published: January 2018

AbstractMetallic glass composites represent a unique alloy design strategy comprising of in situ crystalline dendrites in an amorphous matrix to achieve damage tolerance unseen in conventional structural materials. They are promising for a range of advanced applications including spacecraft gears, high-performance sporting goods and bio-implants, all of which demand high surface degradation resistance. Here, we evaluated the phase-specific electrochemical and friction characteristics of a Zr-based metallic glass composite, Zr56.2Ti13.8Nb5.0Cu6.9Ni5.6Be12.5, which comprised roughly of 40% by volume crystalline dendrites in an amorphous matrix. The amorphous matrix showed higher hardness and friction coefficient compared to the crystalline dendrites. But sliding reciprocating tests for the composite revealed inter-phase delamination rather than preferred wearing of one phase. Pitting during potentiodynamic polarization in NaCl solution was prevalent at the inter-phase boundary, confirming that galvanic coupling was the predominant corrosion mechanism. Scanning vibration electrode technique demonstrated that the amorphous matrix corroded much faster than the crystalline dendrites due to its unfavorable chemistry. Relative work function values measured using scanning kelvin probe showed the amorphous matrix to be more electropositive, which explain its preferred corrosion over the crystalline dendrites as well as its characteristic friction behavior. This study paves the way for careful partitioning of elements between the two phases in a metallic glass composite to tune its surface degradation behavior for a range of advanced applications.