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https://www.readbyqxmd.com/read/28810927/stat3-mediated-upregulation-of-lncrna-hoxd-as1-as-a-cerna-facilitates-liver-cancer-metastasis-by-regulating-sox4
#1
Hui Wang, Xisong Huo, Xin-Rong Yang, Jia He, Lijun Cheng, Na Wang, Xuan Deng, Haojie Jin, Ning Wang, Cun Wang, Fangyu Zhao, Jingyuan Fang, Ming Yao, Jia Fan, Wenxin Qin
BACKGROUND: Several of the thousands of human long noncoding RNAs (lncRNAs) have been functionally characterized, yet their potential involvement in hepatocellular carcinoma (HCC) remains poorly understood. METHODS: LncRNA-HOXD-AS1 was identified by microarray and validated by real-time PCR. The clinicopathological significance of HOXD-AS1 was analyzed by Kaplan-Meier method. Chromatin immunoprecipitation was conducted to examine the mechanism of HOXD-AS1 upregulation...
August 14, 2017: Molecular Cancer
https://www.readbyqxmd.com/read/28810735/accurate-electrochemistry-analysis-of-circulating-methylated-dna-from-clinical-plasma-based-on-paired-end-tagging-and-amplifications
#2
Feng Chen, Xuyao Wang, Xiaowen Cao, Yongxi Zhao
Circulating methylated DNA has been a new kind of cancer biomarker, yet its small fraction of trace total DNA from clinical samples impairs the accurate analysis. Though fluorescence methods based on quantitative methylation specific PCR (qMSP) have been adopted routinely, yet alternative electrochemistry assay of such DNA from clinical samples remains a great challenge. Herein, we report accurate electrochemistry analysis of circulating methylated DNA from clinical plasma samples based on a paired-end tagging and amplifications strategy...
August 16, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28810661/identification-of-lectin-counter-receptors-on-cell-membranes-by-proximity-labeling
#3
Gang Wu, Manjula Nagala, Paul R Crocker
Lectin-glycan interactions play important roles in many biological systems, but the nature of glycoprotein counter-receptors expressed on cell membranes is often poorly understood. To help overcome this problem, we developed a method based on proximity labeling technology. Using a peroxidase-coupled lectin, addition of H2O2 and tyramide-biotin substrates leads to generation of short-range biotin radicals that biotinylate proteins in the immediate vicinity of the bound lectin, which can subsequently be identified...
September 1, 2017: Glycobiology
https://www.readbyqxmd.com/read/28810233/an-ultrasensitive-electrochemical-biosensor-for-the-detection-of-meca-gene-in-methicillin-resistant-staphylococcus-aureus
#4
Li Xu, Wen Liang, Yanli Wen, Lele Wang, Xue Yang, Shuzhen Ren, Nengqin Jia, Xiaolei Zuo, Gang Liu
Electrochemical DNA biosensor has unique advantages for on-site pathogenic microorganism detection, yet the detection of long DNA towards genome DNA (gDNA) analysis remains challenge. In this work, we report a novel electrochemical biosensor for the ultrasensitive analysis of mecA DNA on methicillin-resistant Staphylococcus aureus (MRSA) genome, using a multi-signal probes (MSP) system. The MSP consists of 7 biotin-labelled signal probes that will combine to the target DNA in a prehybridization step, and then the complex will be captured by a DNA tetrahedron structure probe (TSP) on the electrode surface...
August 8, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28808999/studying-protein-protein-interactions-by-biotin-ap-tagged-pulldown-and-ltq-orbitrap-mass-spectrometry
#5
Zhongqiu Xie, Yuemeng Jia, Hui Li
The study of protein-protein interactions represents a key aspect of biological research. Identifying unknown protein binding partners using mass spectrometry (MS)-based proteomics has evolved into an indispensable strategy in drug discovery. The classic approach of immunoprecipitation with specific antibodies against the proteins of interest has limitations, such as the need for immunoprecipitation-qualified antibody. The biotin AP-tag pull-down system has the advantage of high specificity, ease of use, and no requirement for antibody...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/28808024/structural-and-functional-studies-of-pyruvate-carboxylase-regulation-by-cyclic-di-amp-in-lactic-acid-bacteria
#6
Philip H Choi, Thu Minh Ngoc Vu, Huong Thi Pham, Joshua J Woodward, Mark S Turner, Liang Tong
Cyclic di-3',5'-adenosine monophosphate (c-di-AMP) is a broadly conserved bacterial second messenger that has been implicated in a wide range of cellular processes. Our earlier studies showed that c-di-AMP regulates central metabolism in Listeria monocytogenes by inhibiting its pyruvate carboxylase (LmPC), a biotin-dependent enzyme with biotin carboxylase (BC) and carboxyltransferase (CT) activities. We report here structural, biochemical, and functional studies on the inhibition of Lactococcus lactis PC (LlPC) by c-di-AMP...
August 14, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28806521/determination-of-caspase-3-activity-and-its-inhibition-constant-by-combination-of-fluorescence-correlation-spectroscopy-with-a-microwell-chip
#7
Di Su, Xiaocai Hu, Chaoqing Dong, Jicun Ren
Caspase-3 is a key enzyme executing apoptosis during ontogenesis and homeostasis of multicellular organisms, and is a very important and potential drug target in treatment of apoptosis disturbance. So far, no commercial drugs for caspase-3 are available, and it is urgently necessitated to develop an effective method for caspase-3 activity assay and its inhibitor screening. In this paper, we propose a new method for determination of caspase-3 activity and its inhibition constant by combining single molecule fluorescence correlation spectroscopy (FCS) with a microwell chip...
August 14, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28806113/-hungarian-diet-and-nutritional-status-survey-the-otap2014-study-v-vitamin-intake-of-the-hungarian-population
#8
Erzsébet Schreiberné Molnár, Zsuzsanna Nagy-Lőrincz, Barbara Nagy, Márta Bakacs, Orsolya Kis, Eszter Sarkadi Nagy, Éva Martos
INTRODUCTION AND AIM: The Hungarian Diet and Nutritional Status Survey was implemented on a sub-sample of the European Health Interview Survey. In this paper, the authors present the data on the vitamin intake of the Hungarian population. METHOD: The survey represents the vitamin intake of the Hungarian non-institutionalised adult population of 18 years and older. There are significant differences between men's and women's vitamin intake. RESULTS: The intake of all water-soluble vitamins except for vitamin C is higher in men than in women, and the difference between the genders regarding the intake of vitamin E and D is significant...
August 2017: Orvosi Hetilap
https://www.readbyqxmd.com/read/28803008/two-step-large-volume-magnetic-separation-combined-with-pcr-assay-for-sensitive-detection-of-listeria-monocytogenes-in-pasteurized-milk
#9
Dan Luo, Xiaolin Huang, Yan Mao, Chaochao Chen, Fulai Li, Hengyi Xu, Yonghua Xiong
Immunomagnetic separation (IMS) is an effective tool for the preconcentration and purification of food-borne pathogens from complex food samples because of its high capture efficiency (CE). In conventional IMS, antibodies are usually conjugated on the surface of magnetic beads (MB); the random orientation and conformation changes of antibodies on the MB surface can decrease their bioactivity. Moreover, the Brownian motion of immobilized antibodies is weakened, thereby rendering their binding efficiency with bacteria lower than that of free antibodies...
August 9, 2017: Journal of Dairy Science
https://www.readbyqxmd.com/read/28802835/residues-in-the-eighth-transmembrane-domain-of-the-proton-coupled-folate-transporter-slc46a1-play-an-important-role-in-defining-the-aqueous-translocation-pathway-and-in-folate-substrate-binding
#10
Srinivas Aluri, Rongbao Zhao, Andras Fiser, I David Goldman
The proton-coupled folate transporter (PCFT-SLC46A1) is required for intestinal folate absorption and folate transport across the choroid plexus. This report addresses the structure/function of the 8th transmembrane helix. Based upon biotinylation of cysteine-substituted residues by MTSEA-biotin, 14 contiguous exofacial residues to Leu316 were accessible to the extracellular compartment of the 23 residues in this helix (Leu303-Leu325). Pemetrexed blocked biotinylation of six Cys-substituted residues deep within the helix implicating an important role for this region in folate binding...
August 9, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28802175/conjugate-of-biotin-with-silicon-iv-phthalocyanine-for-tumor-targeting-photodynamic-therapy
#11
Ke Li, Ling Qiu, Qingzhu Liu, Gaochao Lv, Xueyu Zhao, Shanshan Wang, Jianguo Lin
In order to improve the efficacy of photodynamic therapy (PDT), biotin was axially conjugated with silicon(IV) phthalocyanine (SiPc) skeleton to develop a new tumor-targeting photosensitizer SiPc-biotin. The target compound SiPc-biotin showed much higher binding affinity toward BR-positive (biotin receptor overexpressed) HeLa human cervical carcinoma cells than its precursor SiPc-pip. However, when the biotin receptors of HeLa cells were blocked by free biotin, >50% uptake of SiPc-biotin was suppressed, demonstrating that SiPc-biotin could selectively accumulate in BR-positive cancer cells via the BR-mediated internalization...
August 3, 2017: Journal of Photochemistry and Photobiology. B, Biology
https://www.readbyqxmd.com/read/28797956/orientation-and-density-control-of-proteins-on-solid-matters-by-outer-membrane-coating-analytical-and-diagnostic-applications
#12
REVIEW
Min Park, Jae-Chul Pyun, Joachim Jose
Autodisplay is an expression system for the display of recombinant proteins on the outer membrane (OM) of gram negative bacteria and has been developed for translocation studies, whole cell biocatalysis, bioremediation, inhibitor screening, and enzyme refolding. Recently, affinity proteins such as IgG-binding Z-domains and biotin-binding streptavidin have been autodisplayed on the OM of Escherichia coli for analytical and biomedical applications. The secretion mechanism of the autodisplay system was used and orientation and density control of these affinity proteins were determined...
July 31, 2017: Journal of Pharmaceutical and Biomedical Analysis
https://www.readbyqxmd.com/read/28795744/a-cell-selective-glutathione-responsive-tris-phthalocyanine-as-a-smart-photosensitiser-for-targeted-photodynamic-therapy
#13
Sun Y S Chow, Shirui Zhao, Pui-Chi Lo, Dennis K P Ng
A biotin-conjugated disulfide-linked tris(phthalocyanine) has been synthesised and characterised. As shown by electronic absorption and steady-state fluorescence spectroscopy methods, the compound remains non-aggregated in N,N-dimethylformamide, but is significantly aggregated in phosphate buffered saline with 1% Cremophor EL. The reduction in fluorescence intensity and singlet oxygen generation efficiency as compared with the monomeric counterpart suggests that the tris(phthalocyanine) exhibits an excellent self-quenching effect, particularly in an aqueous medium...
August 10, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28794336/fast-and-single-step-fluorescence-based-competitive-bioassay-microdevice-combined-pdms-microchannel-arrays-separately-immobilizing-graphene-oxide-analyte-conjugates-and-fluorescently-labelled-receptor-proteins
#14
Akihiro Shirai, Kaho Nakashima, Kenji Sueyoshi, Tatsuro Endo, Hideaki Hisamoto
In this study, a fast and easy-to-use capillary-type microdevice for competitive bioassay is proposed. The device is composed of polydimethylsiloxane (PDMS) microchannel arrays that separately immobilize polyethylene glycol (PEG) coating, which contained graphene oxide (GO)-analyte conjugates and fluorescently-labelled receptor proteins. The working principle of the device involved the spontaneous dissolution of the PEG coating, subsequent mixing and reaction with analyte to give fluorescence response, triggered by the capillary action-mediated introduction of a sample solution...
2017: Analytical Sciences: the International Journal of the Japan Society for Analytical Chemistry
https://www.readbyqxmd.com/read/28794331/acoustic-sensing-based-on-density-shift-of-microspheres-by-surface-binding-of-gold-nanoparticles
#15
Akihisa Miyagawa, Yoshinori Inoue, Makoto Harada, Tetsuo Okada
Herein, we propose a concept for sensing based on density changes of microparticles (MPs) caused by a biochemical reaction. The MPs are levitated by a combined acoustic-gravitational force at a position determined by the density and compressibility. Importantly, the levitation is independent of the MPs sizes. When gold nanoparticles (AuNPs) are bound on the surface of polymer MPs through a reaction, the density of the MPs dramatically increases, and their levitation position in the acoustic-gravitational field is lowered...
2017: Analytical Sciences: the International Journal of the Japan Society for Analytical Chemistry
https://www.readbyqxmd.com/read/28794325/labeling-of-cytoskeletal-proteins-in-living-cells-using-biotin-ligase-carrying-a-fluorescent-protein
#16
Sairi Nishi, Chihiro Yamamoto, Sawako Yoneda, Shinji Sueda
Labeling with fluorescent proteins is now widely exploited for elucidating the functions and roles of target proteins in living cells. Previously, we developed a protein labeling method by combining a fluorescent protein with a biotinylation reaction from archaeon Sulfolobus tokodaii. Biotinylation from S. tokodaii has a unique property that biotin protein ligase (BPL) forms a stable complex with its biotinylated substrate protein (BCCP). By taking advantage of this unique property, a target protein carrying BCCP in living cells can be labeled through biotinylation with BPL carrying a fluorescent protein...
2017: Analytical Sciences: the International Journal of the Japan Society for Analytical Chemistry
https://www.readbyqxmd.com/read/28794006/identification-of-the-sox2-interactome-by-bioid-reveals-ep300-as-a-mediator-of-sox2-dependent-squamous-differentiation-and-lung-squamous-cell-carcinoma-growth
#17
Bo Ram Kim, Etienne Coyaud, Estelle Laurent, Jonathan St-Germain, Emily Van de Laar, Ming Sound Tsao, Brian Raught, Nadeem Moghal
Lung cancer is the leading cause of cancer mortality worldwide, with squamous cell carcinoma (SQCC) being the second most common form. SQCCs are thought to originate in bronchial basal cells through an injury response to smoking, which results in this stem cell population committing to hyperplastic squamous rather than mucinous and ciliated fates. Copy number gains in SOX2 in the region of 3q26-28 occur in 94% of SQCCs, and appear to act both early and late in disease progression by stabilizing the initial squamous injury response in stem cells and promoting growth of invasive carcinoma...
August 9, 2017: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/28793037/impact-of-propofol-on-renal-ischemia-reperfusion-endoplasmic-reticulum-stress
#18
Mengqin Su, Sueng Ren, Wei Zhong, Xueping Han
Purpose: To investigate the protective mechanisms of propofol (Pro) on renal ischemia/reperfusion (I/R) injury by studying its impact on renal I/R endoplasmic reticulum stress. Methods: Eighteen male Sprague-Dawley rats (SD rats) were randomly divided into three groups: the I/R group, the Pro pretreatment group, and the control group, and corresponding treatments were performed. The levels of serum creatinine (Cr) and blood urea nitrogen (BUN) of each group were detected...
July 2017: Acta Cirúrgica Brasileira
https://www.readbyqxmd.com/read/28791550/drug-delivery-nanoparticles-with-locally-tunable-toxicity-made-entirely-from-a-light-activatable-prodrug-of-doxorubicin
#19
Carolyn Schutt, Stuart Ibsen, Eran Zahavy, Santosh Aryal, Stacey Kuo, Selin Esener, Michael Berns, Sadik Esener
PURPOSE: A major challenge facing nanoparticle-based delivery of chemotherapy agents is the natural and unavoidable accumulation of these particles in healthy tissue resulting in local toxicity and dose-limiting side effects. To address this issue, we have designed and characterized a new prodrug nanoparticle with controllable toxicity allowing a locally-delivered light trigger to convert the payload of the particle from a low to a high toxicity state. METHODS: The nanoparticles are created entirely from light-activatable prodrug molecules using a nanoprecipitation process...
August 8, 2017: Pharmaceutical Research
https://www.readbyqxmd.com/read/28775283/structural-basis-for-the-mechanism-of-atp-dependent-acetone-carboxylation
#20
Florence Mus, Brian J Eilers, Alexander B Alleman, Burak V Kabasakal, Jennifer N Wells, James W Murray, Boguslaw P Nocek, Jennifer L DuBois, John W Peters
Microorganisms use carboxylase enzymes to form new carbon-carbon bonds by introducing carbon dioxide gas (CO2) or its hydrated form, bicarbonate (HCO3(-)), into target molecules. Acetone carboxylases (ACs) catalyze the conversion of substrates acetone and HCO3(-) to form the product acetoacetate. Many bicarbonate-incorporating carboxylases rely on the organic cofactor biotin for the activation of bicarbonate. ACs contain metal ions but not organic cofactors, and use ATP to activate substrates through phosphorylation...
August 3, 2017: Scientific Reports
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