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Aptamers

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https://www.readbyqxmd.com/read/28635657/selection-of-nucleic-acid-aptamers-targeting-tumor-cell-surface-protein-biomarkers
#1
REVIEW
Marie-Cécile Mercier, Monique Dontenwill, Laurence Choulier
Aptamers are nucleic acids referred to as chemical antibodies as they bind to their specific targets with high affinity and selectivity. They are selected via an iterative process known as 'selective evolution of ligands by exponential enrichment' (SELEX). Aptamers have been developed against numerous cancer targets and among them, many tumor cell-membrane protein biomarkers. The identification of aptamers targeting cell-surface proteins has mainly been performed by two different strategies: protein- and cell-based SELEX, when the targets used for selection were proteins and cells, respectively...
June 21, 2017: Cancers
https://www.readbyqxmd.com/read/28635257/circular-bivalent-aptamers-enable-in-vivo-stability-and-recognition
#2
Hailan Kuai, Zilong Zhao, Liuting Mo, Hui Liu, Xiao-Xiao Hu, Ting Fu, Xiao-Bing Zhang, Weihong Tan
Aptamers are powerful candidates for molecular imaging and targeted therapy of cancer based on such appealing features as high binding affinity, high specificity, site-specific modification and rapid tumor penetration. However, aptamers are susceptible to plasma exonucleases in vivo. This seriously affects their in vivo applications. To overcome this key limitation, we herein report the design and development of circular bivalent aptamers. Systematic studies reveal that cyclization of aptamers can improve thermal stability, nuclease resistance and binding affinity...
June 21, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28635152/a-novel-dna-structure-containing-agi-mediated-g-g-and-c-c-base-pairs
#3
Hehua Liu, Fusheng Shen, Phensinee Haruehanroengra, Qingqing Yao, Yunshan Cheng, Yiqing Chen, Chun Yang, Jing Zhang, Baixing Wu, Qiang Luo, Ruixue Cui, Jixi Li, Jinbiao Ma, Jia Sheng, Jianhua Gan
Metallo-base pairs have been extensively utilized in many research fields, including genetic code extension, novel therapeutics development, and various nanodevice designs. Compared to other cations, AgI is more flexible in pairing with natural base pairs. Herein, we present a DNA structure containing two C-AgI-C pairs and one first time reported G-AgI-G pair in a short 8mer DNA strand. This structure not only discloses the detailed insights into these AgI-base pairing patterns in DNA, but also represents the first nonhelical DNA structure driven by the heavy metal ions, further contributing to the structural diversity of DNA...
June 20, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28634758/a-general-double-library-selex-strategy-for-aptamer-selection-using-unmodified-nonimmobilized-targets
#4
Kyung Hyun Lee, Huaqiang Zeng
Aptamer discovery for unmodified nonimmobilized targets has been constantly presenting itself as a significant challenge to the research community. We demonstrate here a novel double library (DL) SELEX strategy and its usefulness and generality toward discovering both ssDNA- and RNA-based aptamers with nanomolar binding affinities toward unmodified targets of both small (e.g., doxycycline) and large (e.g., VEGF165) sizes. The same selection strategy further allows for concurrent selection of an aptamer pair, recognizing discrete epitopes on the same protein, from the same selection cycles for the sandwich aptamer pair-based biosensor development (e...
June 20, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28633099/simultaneous-and-specific-enrichment-of-several-amphenicol-antibiotics-residues-in-food-based-on-novel-aptamer-functionalized-magnetic-adsorbents-using-hplc-dad
#5
Shengfeng Huang, Ning Gan, Haibo Liu, You Zhou, Yinji Chen, Yuting Cao
In this work, a novel aptamer functionalized magnetic adsorbent was developed and combined with magnetic dispersive solid phase extraction (MDSPE) for selective enrichment of several amphenicol antibiotics residues (chloramphenicol(CAP), thiamphenicol(TAP) and florphenicol(FF)) in foodstuff then determined by High Performance Liquid Chromatography (HPLC)-Diode array detector(DAD). Firstly, a magnetic silica-coated Fe3O4 microsphere(Fe3O4@SiO2) was synthetized by sol-gel method, then it was functionalized by amino groups through 3-Aminopropyltriethoxysilane (APTES) reagent to form Fe3O4@SiO2-NH2; Thirdly, the amino group on Fe3O4@SiO2-NH2 was transferred to carboxylic group via the succinic anhydride to form Fe3O4@SiO2-COOH...
June 12, 2017: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/28632925/a-kallikrein-targeting-rna-aptamer-inhibits-the-intrinsic-pathway-of-coagulation-and-reduces-bradykinin-release
#6
K-A Steen-Burrell, J Layzer, B A Sullenger
BACKGROUND: Plasma kallikrein is a serine protease that plays an integral role in many biological processes including coagulation, inflammation, and fibrinolysis. The main function of kallikrein in coagulation is the amplification of activated factor XIIa (FXIIa) generation which ultimately leads to thrombin generation and fibrin clot formation. Kallikrein is generated by FXIIa-mediated cleavage of the zymogen, prekallikrein which is usually complexed with the nonenzymatic cofactor, high-molecular-weight kininogen (HK)...
June 20, 2017: Journal of Thrombosis and Haemostasis: JTH
https://www.readbyqxmd.com/read/28632380/recent-progress-in-nanomaterial-based-optical-aptamer-assay-for-the-detection-of-food-chemical-contaminants
#7
Lingyi Lan, Yao Yao, Jianfeng Ping, Yibin Ying
Food chemical contaminant is a major factor to cause foodborne diseases and can do harm to human health. Hence, to develop robust, easy, and sensitive methods for rapid evaluation of food chemical contaminants is highly desirable. Nanomaterial-based optical aptasensors combined with the advantages of the high selectivity of optical detection techniques, excellent stability of aptamer, and the unique properties of nanomaterials have been recognized as useful tools for routine biosensing applications. The recent progress in nanomaterial-based optical aptamer assays to determine food chemical contaminants including heavy metals, toxins, pesticides, and antibiotics are presented in this paper...
June 20, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28631505/methylglyoxal-derived-hydroimidazolone-1-evokes-inflammatory-reactions-in-endothelial-cells-via-an-interaction-with-receptor-for-advanced-glycation-end-products
#8
Yuji Ishibashi, Takanori Matsui, Nobutaka Nakamura, Ami Sotokawauchi, Yuichiro Higashimoto, Sho-Ichi Yamagishi
OBJECTIVE: Glyceraldehyde-derived advanced glycation end products contribute to vascular inflammation in diabetes. However, what advanced glycation end product structure could evoke inflammatory reactions remains unknown. We examined whether and how methylglyoxal-derived hydroimidazolone 1, one of the advanced glycation end products formed from glyceraldehyde, elicits inflammatory reactions in human umbilical vein endothelial cells. MATERIALS AND METHODS: Glyceraldehyde-advanced glycation end products-aptamer was prepared using a systemic evolution of ligands by exponential enrichment...
June 1, 2017: Diabetes & Vascular Disease Research
https://www.readbyqxmd.com/read/28629023/heparin-dna-aptamer-co-assembled-multifunctional-catecholamine-coating-for-epc-capture-and-improved-hemocompatibility-of-vascular-devices
#9
Jinchuan Deng, Shuheng Yuan, Xin Li, Kebing Wang, Lingxia Xie, Na Li, Jin Wang, Nan Huang
Good hemocompatibility and rapid endothelialization are two key factors in the success of stent interventional therapy. In this study, aptamers with the ability to capture endothelial progenitors and anticoagulant molecular heparin were successfully immobilized on the surface of dopamine/polyethylenimine (PDA/PEI) copolymer coating via electrostatic interaction. The results of X-ray spectroscopy (XPS), water contact angle (WCA), and immunofluorescence staining tests confirmed the successful introduction of heparin and aptamers...
October 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28627727/development-of-hgf-binding-aptamers-with-the-combination-of-g4-promoter-derived-aptamer-selection-and-in-silico-maturation
#10
Tomomi Yokoyama, Kaori Tsukakoshi, Wataru Yoshida, Taiki Saito, Kentaro Teramoto, Nasa Savory, Koichi Abe, Kazunori Ikebukuro
We describe the selection of aptamers based on bioinformatics-based approaches without Systematic Evolution of Ligands by EXponential enrichment (SELEX). SELEX is a potent method; however, it is time intensive and the PCR-amplification step, which is essential step for SELEX, leads to the loss of good aptamers. We have developed an aptamer-screening method, G4 promoter-derived aptamer selection (G4PAS), and an aptamer-improving method, in silico maturation (ISM). They are based on in silico sequence selection and computer assisted directed evolution, respectively...
June 19, 2017: Biotechnology and Bioengineering
https://www.readbyqxmd.com/read/28626560/selective-single-molecule-nanopore-sensing-of-proteins-using-dna-aptamer-functionalised-gold-nanoparticles
#11
Xiaoyan Lin, Aleksandar P Ivanov, Joshua B Edel
Single molecule detection methods, such as nanopore sensors have found increasing importance in applications ranging from gaining a better understanding of biophysical processes to technology driven solutions such as DNA sequencing. However, challenges remain especially in relation to improving selectivity to probe specific targets or to alternatively enable detection of smaller molecules such as small-sized proteins with a sufficiently high signal-to-noise ratio. In this article, we propose a solution to these technological challenges by using DNA aptamer-modified gold nanoparticles (AuNPs) that act as a molecular carrier through the nanopore sensor...
May 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/28625157/purification-of-single-stranded-dna-by-co-polymerization-with-acrylamide-and-electrophoresis
#12
Tulsi Ram Damase, Andrew D Ellington, Peter B Allen
Single-stranded DNA (ssDNA) oligonucleotides are useful as aptamers, hybridization probes and for emerging applications in DNA nanotechnology. Current methods to purify ssDNA require both a strand-separation step and a separate size-separation step but may still leave double-stranded DNA (dsDNA) impurities in the sample. Here, we use commercially available acrydite DNA primers to immobilize one strand of a PCR product within a polyacrylamide matrix. Electrophoresis moves the non-crosslinked DNA into the gel where the single-stranded product of desired size can be recovered...
June 1, 2017: BioTechniques
https://www.readbyqxmd.com/read/28624620/agbr-nanoparticles-3d-nitrogen-doped-graphene-hydrogel-for-fabricating-all-solid-state-luminol-electrochemiluminescence-escherichia-coli-aptasensors
#13
Nan Hao, Xuan Zhang, Zhou Zhou, Rong Hua, Ying Zhang, Qian Liu, Jing Qian, Henan Li, Kun Wang
It is necessary to develop rapid, simple and accurate detection method for Escherichia coli (E. coli) due to its widely distributed pathogenic bacteria. Herein, we prepared AgBr nanoparticles (NPs) anchored 3D nitrogen-doped graphene hydrogel (3DNGH) nanocomposites with an exceptionally large accessible surface by a simple hydrothermal approach. The as-prepared 3DNGH porous nanocomposite not only showed better conductivity than that of 3D graphene due to introducing nitrogen element into graphene framework, but also provided a high loading volume for immobilizing luminol...
June 13, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28624389/plasma-proteome-analysis-in-patients-with-pulmonary-arterial-hypertension-an-observational-cohort-study
#14
Christopher J Rhodes, John Wharton, Pavandeep Ghataorhe, Geoffrey Watson, Barbara Girerd, Luke S Howard, J Simon R Gibbs, Robin Condliffe, Charles A Elliot, David G Kiely, Gerald Simonneau, David Montani, Olivier Sitbon, Henning Gall, Ralph T Schermuly, H Ardeschir Ghofrani, Allan Lawrie, Marc Humbert, Martin R Wilkins
BACKGROUND: Idiopathic and heritable pulmonary arterial hypertension form a rare but molecularly heterogeneous disease group. We aimed to measure and validate differences in plasma concentrations of proteins that are associated with survival in patients with idiopathic or heritable pulmonary arterial hypertension to improve risk stratification. METHODS: In this observational cohort study, we enrolled patients with idiopathic or heritable pulmonary arterial hypertension from London (UK; cohorts 1 and 2), Giessen (Germany; cohort 3), and Paris (France; cohort 4)...
June 14, 2017: Lancet Respiratory Medicine
https://www.readbyqxmd.com/read/28624387/aptamer-based-proteomic-profiling-for-prognostication-in-pulmonary-arterial-hypertension
#15
Evangelos Giannitsis, Matthias Mueller-Hennessen, Hugo A Katus
No abstract text is available yet for this article.
June 14, 2017: Lancet Respiratory Medicine
https://www.readbyqxmd.com/read/28624215/periostin-binding-dna-aptamer-treatment-ameliorates-peritoneal-dialysis-induced-peritoneal-fibrosis
#16
Bo Young Nam, Jung Tak Park, Young Eun Kwon, Jung Pyo Lee, Jong Ha Jung, Youndong Kim, Seonghun Kim, Jimin Park, Jae Eun Um, Meiyan Wu, Seung Hyeok Han, Tae-Hyun Yoo, Shin-Wook Kang
Peritoneal fibrosis is a major complication in peritoneal dialysis (PD) patients, which leads to dialysis discontinuation. Periostin, increased by transforming growth factor β1 (TGF-β1) stimulation, induces the expression of extracellular matrix (ECM) genes. Aberrant periostin expression has been demonstrated to be associated with PD-related peritoneal fibrosis. Therefore, the effect of periostin inhibition by an aptamer-based inhibitor on peritoneal fibrosis was evaluated. In vitro, TGF-β1 treatment upregulated periostin, fibronectin, α-smooth muscle actin (α-SMA), and Snail expression and reduced E-cadherin expression in human peritoneal mesothelial cells (HPMCs)...
June 16, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28623657/aptamer-magnetic-bead-quantum-dot-sandwich-assays-for-foodborne-pathogen-detection-pros-cons-and-lessons-learned
#17
John G Bruno, Jeffrey C Sivils, Taylor Phillips
DNA and RNA aptamers have been extensively investigated as potential competitors for antibodies for a variety of applications including food safety testing. Ultrasensitive fluorescence detection of foodborne pathogenic bacteria as low as 1-10 cells/mL has been achieved using aptamers coupled to quantum dots in clear pristine buffers for environmental sample detection. Quantum dots offer other advantages, including single UV or blue light source multiplex (multicolored) detection. However, quantum dots can exhibit decreased fluorescence in some food matrixes and even completely fail to fluoresce in some fatty matrixes, as documented in this report...
June 16, 2017: Journal of AOAC International
https://www.readbyqxmd.com/read/28622804/g-quadruplex-based-exo-iii-assisted-signal-amplification-aptasensor-for-the-colorimetric-detection-of-adenosine
#18
Lei Xu, Xin Shen, Bingzhi Li, Chunhong Zhu, Xuemin Zhou
Adenosine is an endogenous nucleotide pivotally involved in nucleic acid and energy metabolism. Its excessive existence may indicate tumorigenesis, typically lung cancer. Encouraged by its significance as the clinical biomarker, sensitive assay methods towards adenosine have been popularized, with high cost and tedious procedures as the inevitable defects. Herein, we report a label-free aptamer-based exonuclease III (Exo III) amplification colorimetric aptasensor for the highly sensitive and cost-effective detection of adenosine...
August 8, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28622642/highly-sensitive-electrochemical-thrombin-aptasensor-based-on-peptide-enhanced-electrocatalysis-of-hemin-g-quadruplex-and-nanocomposite-as-nanocarrier
#19
Yongmei Wu, Lina Zou, Sheng Lei, Qian Yu, Baoxian Ye
In this work, we first conjugated a short peptide to thrombin binding aptamer (TBA) and bond hemin to the hybrid, effectively rendering hemin/G4-peptide more active over the original hemin/G4, so that a highly sensitive electrochemical thrombin (TB) aptasensor was developed based on it and PtNTs@rGO nanocomposite. It was the first report on the application of hemin/G4-peptide in electrochemical aptasensor. PtNTs@rGO with large surface area served as excellent nanocarrier for high loading of hemin/G4-peptide hybrids, resulting in the formation of hemin/G4-peptide-PtNTs@rGO bioconjugate as the secondary aptamer and further signal enhancement...
June 11, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28621571/targeted-nanotechnologies-for-cancer-intervention-a-patent-review-2010-2016
#20
Priyamvada Pradeep, Pradeep Kumar, Yahya E Choonara, Viness Pillay
In recent years, several active targeting nanostrategies have been patented for application in cancer theranostics. The versatility of nanostructures in terms of composition, manufacturability, functionalization, and matrix formation make them ideal for carrying large dose of bioactive contents, high density of targeting ligands on their surface, efficient delivery to the site of interest, and capable of forming multicomponent platforms. Areas covered: The patents were classified into polymeric and non-polymeric nanostructures and their applicability in addressing the targeting paradigm related to cancer intervention was explored...
June 16, 2017: Expert Opinion on Therapeutic Patents
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