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https://www.readbyqxmd.com/read/28549385/identification-and-imaging-of-leukemia-cells-using-dual-aptamer-functionalized-graphene-oxide-complex
#1
Amirhossein Bahreyni, Rezvan Yazdian-Robati, Mohammad Ramezani, Mehdi Rasouli, Morteza Alinezhad Nameghi, Mona Alibolandi, Khalil Abnous, Seyed Mohammad Taghdisi
Acute lymphoblastic leukemia is the most common malignancy in children. Patient improvement completely depends on the diagnosis of acute lymphoblastic leukemia. So there is a great demand for diagnosis of acute lymphoblastic leukemia. In this study, a novel assay based on dual-aptamer (Sgc8c and ATP aptamers)-functionalized graphene oxide (DAFGO) complex was designed for the identification of Molt-4 cells (human acute lymphoblastic leukemia T-cell). This assay relies on the internalization of DAFGO complex into Molt-4 cells, but not into U266 cells, using Sgc8c aptamer as molecular recognition probe, and release of FAM-labeled ATP aptamer from the complex in the presence of high amounts of ATP in lysosome, leading to a strong fluorescence emission...
January 1, 2017: Journal of Biomaterials Applications
https://www.readbyqxmd.com/read/28549218/exosite-2-directed-ligands-attenuate-protein-c-activation-by-the-thrombin-thrombomodulin-complex
#2
Kai Chen, Alan R Stafford, Chengliang Wu, Calvin Yeh, Paul Y Kim, James C Fredenburgh, Jeffrey I Weitz
Thrombin activity, inhibition, and localization are regulated by two exosites that flank the active site. Substrates, cofactors and inhibitors bind to exosite 1 to promote active site access, whereas exosite 2 interactions retain thrombin on cells, platelets, and proteins. The exosites also serve allosteric roles, whereby ligand binding alters thrombin activity. Previously, we showed that ligands that bind exosite 2 attenuate the exosite 1-mediated interaction of thrombin with fibrin, demonstrating allosteric connection between the exosites...
May 26, 2017: Biochemistry
https://www.readbyqxmd.com/read/28549181/g-quadruplex-structure-of-an-anti-proliferative-dna-sequence
#3
Ngoc Quang Do, Wan Jun Chung, Thi Hong Anh Truong, Brahim Heddi, Anh Tuân Phan
AGRO100 (also known as AS1411) is a G-rich oligonucleotide that has long been established as a potent anti-cancer aptamer. However, the structure of AGRO100 remained unresolved, due to the co-existence of multiple different G-quadruplex conformations. We identified a DNA sequence named AT11, derived from AGRO100, which formed a single major G-quadruplex conformation and exhibited a similar anti-proliferative activity as AGRO100. The solution structure of AT11 revealed a four-layer G-quadruplex comprising of two propeller-type parallel-stranded subunits connected through a central linker...
May 26, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28548675/inducible-bcl-2-gene-rna-interference-mediated-by-aptamer-integrated-hdv-ribozyme-switch
#4
Yuanyuan Zhang, Jine Wang, Hui Cheng, Na Sun, Min Liu, Zhengyan Wu, Renjun Pei
The regulation of RNA interference (RNAi) could be a powerful method for the study of temporal and dose dependent effects of gene expression. In this study, we designed the hepatitis delta virus (HDV) ribozyme with an embedded theophylline aptamer as the sensor domain and the pri-miRNA of endogenous gene Bcl-2 as the effector domain to engineer an RNAi-regulatory device in MCF-7 cells. The system allowed us to control gene expression by adding theophylline into the culture media in a dose dependent fashion...
May 26, 2017: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/28548671/controllable-n-fe2o3-graphene-nanomaterials-by-ald-applied-in-an-aptasensor-with-enhanced-electrochemical-performance-for-thrombin-detection
#5
Hongfen Zhang, Baiyan Zhang, Anjia Chen, Yong Qin
An elegant atomic layer deposition (ALD) method has been employed for the controllable preparation of a uniform Fe2O3-coated graphene nanostructure (Fe2O3@graphene). The Fe2O3 coating thickness of the Fe2O3@graphene nanostructure can be tuned by varying the cycle number of Fe2O3 ALD. The produced Fe2O3@graphene composites are characterized by transmission electron microscopy (TEM), X-ray photoelectron spectroscopy (XPS), Raman spectroscopy and cyclic voltammetry (CV). It is revealed that Fe2O3 is effectively deposited on the surface of graphene...
May 26, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28548488/a-fluorescent-split-aptamer-for-visualizing-rna-rna-assembly-in-vivo
#6
Khalid K Alam, Kwaku D Tawiah, Matthew F Lichte, David Porciani, Donald H Burke
RNA-RNA assembly governs key biological processes and is a powerful tool for engineering synthetic genetic circuits. Characterizing RNA assembly in living cells often involves monitoring fluorescent reporter proteins, which are at best indirect measures of underlying RNA-RNA hybridization events and are subject to additional temporal and load constraints associated with translation and activation of reporter proteins. In contrast, RNA aptamers that sequester small molecule dyes and activate their fluorescence are increasingly utilized in genetically encoded strategies to report on RNA-level events...
May 26, 2017: ACS Synthetic Biology
https://www.readbyqxmd.com/read/28544018/next-generation-nucleic-acid-aptamers-with-two-base-modified-nucleotides-improve-the-binding-affinity-and-potency
#7
Rakesh Naduvile Veedu, Hadi AlShamaileh
Aptamers are single-stranded oligonucleotides (RNA or DNA) that can bind to their targets with high affinities and specificities because of their ability to adopt three-dimensional shapes in solution. Traditionally, aptamers are developed by SELEX (Systematic Evolution of Ligands by Exponential enrichment), a reiterative process involving selection by target molecule incubation with an oligonucleotide library and enrichment of the selected oligonucleotides by amplification. One drawback of current aptamer selection approach is the lack of diversity in the nucleic acid library with only four nucleobases compositions...
May 24, 2017: Chembiochem: a European Journal of Chemical Biology
https://www.readbyqxmd.com/read/28542563/evaluation-of-somatostatin-and-nucleolin-receptors-for-therapeutic-delivery-in-non-small-cell-lung-cancer-stem-cells-applying-the-somatostatin-analog-dotatate-and-the-nucleolin-targeting-aptamer-as1411
#8
Sif Holmboe, Pernille Lund Hansen, Helge Thisgaard, Ines Block, Carolin Müller, Niels Langkjær, Poul Flemming Høilund-Carlsen, Birgitte Brinkmann Olsen, Jan Mollenhauer
Cancer stem cells represent the putative tumor-driving subpopulation thought to account for drug resistance, relapse, and metastatic spread of epithelial and other cancer types. Accordingly, cell surface markers for therapeutic delivery to cancer stem cells are subject of intense research. Somatostatin receptor 2 and nucleolin are known to be overexpressed by various cancer types, which have elicited comprehensive efforts to explore their therapeutic utilization. Here, we evaluated somatostatin receptor 2 targeting and nucleolin targeting for therapeutic delivery to cancer stem cells from lung cancer...
2017: PloS One
https://www.readbyqxmd.com/read/28541659/multifunctional-screening-platform-for-the-highly-efficient-discovery-of-aptamers-with-high-affinity-and-specificity
#9
Shao-Li Hong, Ya-Tao Wan, Man Tang, Dai-Wen Pang, Zhi-Ling Zhang
Aptamers have attracted much attention as next generation of affinity reagents. Unfortunately, the selection efficiency remains a critical bottleneck for the widespread application of aptamers. Herein, to accelerate aptamers discovery, a multifunctional microfluidic selection platform was developed, on which the selection efficiency was greatly improved and high affinity and specificity aptamers were generated within two round selections. The multifunctional screening platform, precisely manipulating magnetic beads on micrometer scale, improved selection performance based on microfluidic continuous flow and enhanced the selection process control via in-situ monitoring and real-time evaluation...
May 25, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28541183/pausing-guides-rna-folding-to-populate-transiently-stable-rna-structures-for-riboswitch-based-transcription-regulation
#10
Hannah Steinert, Florian Sochor, Anna Wacker, Janina Buck, Christina Helmling, Fabian Hiller, Sara Keyhani, Jonas Noeske, Steffen Kaspar Grimm, Martin M Rudolph, Heiko Keller, Rachel Anne Mooney, Robert Landick, Beatrix Suess, Boris Fürtig, Jens Wöhnert, Harald Schwalbe
In bacteria, the regulation of gene expression by cis-acting transcriptional riboswitches located in the 5'-untranslated regions of messenger RNA requires the temporal synchronization of RNA synthesis and ligand binding-dependent conformational refolding. Ligand binding to the aptamer domain of the riboswitch induces premature termination of the mRNA synthesis of ligand-associated genes due to the coupled formation of 3'-structural elements acting as terminators. To date, there has been no high resolution structural description of the concerted process of synthesis and ligand-induced restructuring of the regulatory RNA element...
May 25, 2017: ELife
https://www.readbyqxmd.com/read/28536711/a-target-triggered-proximity-combination-based-fluorescence-sensing-strategy-for-adenosine-detection
#11
Xiaowen Xu, Haiping Wei, Wei Jiang
Adenosine is a potent physiological and pharmacological regulator, and its abnormal level is closely related to disease development. The sensitive and specific detection of adenosine is crucial for health evaluation and disease diagnosis. In this work, a target triggered proximity combination-based fluorescence sensing strategy is developed for the sensitive and specific detection of adenosine. A difunctional probe showing target recognition and signal amplification is designed, by integration of DNA linker-connected split aptamer fragments with a fragment-elongated polymerase/nicking template...
May 24, 2017: Analyst
https://www.readbyqxmd.com/read/28536344/aptamer-technology-adjunct-therapy-for-malaria
#12
REVIEW
Nik Abdul Aziz Nik Kamarudin, Nurul Adila Mohammed, Khairul Mohd Fadzli Mustaffa
Malaria is a life-threatening parasitic infection occurring in the endemic areas, primarily in children under the age of five, pregnant women, and patients with human immunodeficiency virus and acquired immunodeficiency syndrome (HIV)/(AIDS) as well as non-immune individuals. The cytoadherence of infected erythrocytes (IEs) to the host endothelial surface receptor is a known factor that contributes to the increased prevalence of severe malaria cases due to the accumulation of IEs, mainly in the brain and other vital organs...
January 4, 2017: Biomedicines
https://www.readbyqxmd.com/read/28532053/functionalized-fe3o4-graphene-oxide-nanocomposites-with-hairpin-aptamers-for-the-separation-and-preconcentration-of-trace-pb-2-from-biological-samples-prior-to-determination-by-icp-ms
#13
Mojtaba Shamsipur, Leila Farzin, Mahmoud Amouzadeh Tabrizi, Shahab Sheibani
Lead (Pb) as a topically poisonous metal represents a serious threat to the ecological environment and especially to human beings. Therefore, it is urgent to develop a rapid and reliable monitoring technique for this heavy metal in the environmental samples. In the present study, we have designed a selective and sensitive method for the determination of ultratrace contents of Pb(2+) in biological samples, based on the guanine (G)-quadruplex formed by the aptamer with hairpin structure and Pb(2+). For this purpose, Pb(2+) specific aptamer serving as affinity probe to capture and separate trace amounts of the analyte, was covalently linked to Fe3O4/graphene oxide (GO) surface by using a suitable cross-linking agent...
August 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28531275/molecular-envelope-and-atomic-model-of-an-anti-terminated-glyqs-t-box-regulator-in-complex-with-trnagly
#14
Bhaskar Chetnani, Alfonso Mondragón
A T-box regulator or riboswitch actively monitors the levels of charged/uncharged tRNA and participates in amino acid homeostasis by regulating genes involved in their utilization or biosynthesis. It has an aptamer domain for cognate tRNA recognition and an expression platform to sense the charge state and modulate gene expression. These two conserved domains are connected by a variable linker that harbors additional secondary structural elements, such as Stem III. The structural basis for specific tRNA binding is known, but the structural basis for charge sensing and the role of other elements remains elusive...
May 22, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28531161/development-of-optimized-inhibitor-rnas-allowing-multisite-targeting-of-the-hcv-genome
#15
Cristina Romero-López, Thomas Lahlali, Beatriz Berzal-Herranz, Alfredo Berzal-Herranz
Engineered multivalent drugs are promising candidates for fighting infection by highly variable viruses, such as HCV. The combination into a single molecule of more than one inhibitory domain, each with its own target specificity and even a different mechanism of action, results in drugs with potentially enhanced therapeutic properties. In the present work, the anti-HCV chimeric inhibitor RNA HH363-10, which has a hammerhead catalytic domain and an aptamer RNA domain, was subjected to an in vitro selection strategy to isolate ten different optimised chimeric inhibitor RNAs...
May 22, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28531146/current-and-potential-developments-of-cortisol-aptasensing-towards-point-of-care-diagnostics-potc
#16
REVIEW
Azrul Syafiq Zainol Abidin, Ruslinda A Rahim, Mohd Khairuddin Md Arshad, Mohd Faudzi Fatin Nabilah, Chun Hong Voon, Thean-Hock Tang, Marimuthu Citartan
Anxiety is a psychological problem that often emerges during the normal course of human life. The detection of anxiety often involves a physical exam and a self-reporting questionnaire. However, these approaches have limitations, as the data might lack reliability and consistency upon application to the same population over time. Furthermore, there might be varying understanding and interpretations of the particular question by the participant, which necessitating the approach of using biomarker-based measurement for stress diagnosis...
May 22, 2017: Sensors
https://www.readbyqxmd.com/read/28530731/controllable-mn-doped-zno-nanorods-for-direct-assembly-of-a-photoelectrochemical-aptasensor
#17
Jing Li, Zhihui Dai, Hongbo Li
A label-free photoelectrochemical (PEC) aptasensor for K(+) was first constructed by direct self-assembly of the K(+) aptamer onto the electrodeposited Mn-doped ZnO nanorods. In the presence of K(+), the conformation of G-quadruplex changes to a K(+)-stabilized conformation, which can efficiently prevent the quercetin electron donor from reaching the functionalized photoanode, thus proportionately affecting the quercetin-enhanced photocurrent response. Under the optimal experimental conditions, the fabricated biosensor exhibited a linear response in the K(+) concentration range of 0...
May 22, 2017: Analyst
https://www.readbyqxmd.com/read/28530303/a-highly-sensitive-fet-type-aptasensor-using-flower-like-mos2-nanospheres-for-real-time-detection-of-arsenic-iii
#18
Ji Hyun An, Jyongsik Jang
Arsenic (As) contamination in drinking water is problematic due to its threat to human health. Highly stable, sensitive and selective sensors are needed for As(iii), which is the most toxic of the various forms of arsenic. Herein, we describe the fabrication of field-effect transistor (FET)-type aptasensors for As(iii) detection that is based on carboxylic polypyrrole (CPPy)-coated flower-like MoS2 nanospheres (CFMNSs). Arsenic-binding aptamer-conjugated CFMNSs were integrated into a liquid-ion gated FET system, leading to extraordinary performance with a rapid response (on a time scale of less than 1 s)...
May 22, 2017: Nanoscale
https://www.readbyqxmd.com/read/28530298/aptabody-aptatope-interactions-in-aptablotting-assays
#19
Simranjeet Singh Sekhon, Hyun-Ju Um, Woo-Ri Shin, Sang-Hee Lee, Jiho Min, Ji-Young Ahn, Yang-Hoon Kim
We demonstrate an aptablotting assay method that involves direct and indirect aptabody recognition. Nanoscale single-stranded DNA aptamers against GST and DIG-tags are utilized as aptabodies (GST-2 and DIG-1, respectively), and the GST-2 aptabody binding site, or aptatope, as predicted by a MOE-docking simulation of the protein-aptamer complex, shows the interaction of the GST-2 aptabody at the catalytically active region. The aptabody-aptatope interaction was evaluated by an in vitro enzyme inhibitory analysis...
May 22, 2017: Nanoscale
https://www.readbyqxmd.com/read/28525850/highly-sensitive-aptasensor-based-on-fluorescence-resonance-energy-transfer-between-l-cysteine-capped-zns-quantum-dots-and-graphene-oxide-sheets-for-the-determination-of-edifenphos-fungicide
#20
Majid Arvand, Aazam A Mirroshandel
With the advantages of excellent optical properties and biocompatibility, single-strand DNA-functionalized quantum dots have been widely applied in biosensing and bioimaging. A new aptasensor with easy operation, high sensitivity, and high selectivity was developed by immobilizing the aptamer on water soluble l-cysteine capped ZnS quantum dots (QDs). Graphene oxide (GO) sheets are mixed with the aptamer-QDs. Consequently, the aptamer-conjugated QDs bind to the GO sheets to form a GO/aptamer-QDs ensemble. This aptasensor enables the energy transfer based on a fluorescence resonance energy transfer (FRET) from the QDs to the GO sheets, quenching the fluorescence of QDs...
May 12, 2017: Biosensors & Bioelectronics
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