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DNA nanotechnology

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https://www.readbyqxmd.com/read/28628332/watson-crick-base-pair-radical-cation-as-a-model-for-oxidative-damage-in-dna
#1
Linda Feketeova, Bun Chan, George N Khairallah, Vincent Steinmetz, Philippe Maître, Leo Radom, Richard A J O'Hair
The deleterious cellular effects of ionizing radiation are well known but the mechanisms causing DNA damage are poorly understood. The accepted molecular events involve initial oxidation and deprotonation at guanine sites, triggering hydrogen-atom-abstraction reactions from the sugar moieties, causing DNA strand breaks. Probing the chemistry of the initially formed radical cation has been challenging. Here we generate, spectroscopically characterise and examine the reactivity of the Watson-Crick nucleobase-pair radical cation in the gas-phase...
June 19, 2017: Journal of Physical Chemistry Letters
https://www.readbyqxmd.com/read/28625157/purification-of-single-stranded-dna-by-co-polymerization-with-acrylamide-and-electrophoresis
#2
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/28624216/gold-nanoparticles-for-bcr-abl1-gene-silencing-improving-tyrosine-kinase-inhibitor-efficacy-in-chronic-myeloid-leukemia
#3
Raquel Vinhas, Alexandra R Fernandes, Pedro V Baptista
Introduction of tyrosine kinase inhibitors for chronic myeloid leukemia treatment is associated with a 63% probability of maintaining a complete cytogenetic response, meaning that over 30% patients require an alternative methodology to overcome resistance, tolerance, or side effects. Considering the potential of nanotechnology in cancer treatment and the benefits of a combined therapy with imatinib, a nanoconjugate was designed to achieve BCR-ABL1 gene silencing. Gold nanoparticles were functionalized with a single-stranded DNA oligonucleotide that selectively targets the e14a2 BCR-ABL1 transcript expressed by K562 cells...
June 16, 2017: Molecular Therapy. Nucleic Acids
https://www.readbyqxmd.com/read/28616969/ph-driven-actuation-of-dna-origami-via-parallel-i-motif-sequences-in-solution-and-on-surfaces
#4
Jacob M Majikes, Lucas C C Ferraz, Thomas H LaBean
As bottom up DNA nanofabrication creates increasingly complex and dynamic mechanisms, the implementation of actuators within the DNA nanotechnology toolkit has grown increasingly important. One such actuator, the I-motif, is fairly simple in that it consists solely of standard DNA sequences and does not require any modification chemistry or special purification beyond that typical for DNA oligomer synthesis. This study presents a new implementation of parallel I-motif actuators, emphasizing their future potential as drivers of complex internal motion between substructures...
June 15, 2017: Bioconjugate Chemistry
https://www.readbyqxmd.com/read/28610975/pna-monomers-fully-compatible-with-standard-fmoc-based-solid-phase-synthesis-of-pseudocomplementary-pna
#5
Toru Sugiyama, Genki Hasegawa, Chie Niikura, Keiko Kuwata, Yasutada Imamura, Yosuke Demizu, Masaaki Kurihara, Atsushi Kittaka
Here we report the synthesis of new PNA monomers for pseudocomplementary PNA (pcPNA) that are fully compatible with standard Fmoc chemistry. The thiocarbonyl group of the 2-thiouracil (sU) monomer was protected with the 4-methoxy-2-methybenzyl group (MMPM), while the exocyclic amino groups of diaminopurine (D) were protected with Boc groups. The newly synthesized monomers were incorporated into a 10-mer PNA oligomer using standard Fmoc chemistry for solid-phase synthesis. Oligomerization proceeded smoothly and the HPLC and MALDI-TOF MS analyses indicated that there was no remaining MMPM on the sU nucleobase...
June 3, 2017: Bioorganic & Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/28609612/diverse-supramolecular-nanofiber-networks-assembled-by-functional-low-complexity-domains
#6
Bolin An, Xinyu Wang, Mengkui Cui, Xinrui Gui, Xiuhai Mao, Yan Liu, Ke Li, Cenfeng Chu, Jiahua Pu, Susu Ren, Yanyi Wang, Guisheng Zhong, Timothy K Lu, Cong Liu, Chao Zhong
Self-assembling supramolecular nanofibers, common in the natural world, are of fundamental interest and technical importance to both nanotechnology and materials science. Despite important advances, synthetic nanofibers still lack the structural and functional diversity of biological molecules, and the controlled assembly of one type of molecule into a variety of fibrous structures with wide-ranging functional attributes remains challenging. Here, we harness the low-complexity (LC) sequence domain of fused in sarcoma (FUS) protein, an essential cellular nuclear protein with slow kinetics of amyloid fiber assembly, to construct random copolymer-like, multi-block and self-sorted supramolecular fibrous networks with distinct structural features and fluorescent functionalities...
June 13, 2017: ACS Nano
https://www.readbyqxmd.com/read/28608630/precisely-tailored-dna-nanostructures-and-their-theranostic-applications
#7
REVIEW
Bing Zhu, Lihua Wang, Jiang Li, Chunhai Fan
A critical challenge in nanotechnology is the limited precision and controllability of the structural parameters, which brings about concerns in uniformity, reproducibility and performance. Self-assembled DNA nanostructures, as a newly emerged type of nano-biomaterials, possess low-nanometer precision, excellent programmability and addressability. They can precisely arrange various molecules and materials to form spatially ordered complex, resulting in unambiguous physical or chemical properties. Because of these, DNA nanostructures have shown great promise in numerous biomedical theranostic applications...
June 13, 2017: Chemical Record: An Official Publication of the Chemical Society of Japan ... [et Al.]
https://www.readbyqxmd.com/read/28605605/nanosensor-technology-applied-to-living-plant-systems
#8
Seon-Yeong Kwak, Min Hao Wong, Tedrick Thomas Salim Lew, Gili Bisker, Michael A Lee, Amir Kaplan, Juyao Dong, Albert Tianxiang Liu, Volodymyr B Koman, Rosalie Sinclair, Catherine Hamann, Michael S Strano
An understanding of plant biology is essential to solving many long-standing global challenges, including sustainable and secure food production and the generation of renewable fuel sources. Nanosensor platforms, sensors with a characteristic dimension that is nanometer in scale, have emerged as important tools for monitoring plant signaling pathways and metabolism that are nondestructive, minimally invasive, and capable of real-time analysis. This review outlines the recent advances in nanotechnology that enable these platforms, including the measurement of chemical fluxes even at the single-molecule level...
June 12, 2017: Annual Review of Analytical Chemistry
https://www.readbyqxmd.com/read/28605461/determining-the-folding-and-binding-free-energy-of-dna-based-nanodevices-and-nanoswitches-using-urea-titration-curves
#9
Andrea Idili, Francesco Ricci, Alexis Vallée-Bélisle
DNA nanotechnology takes advantage of the predictability of DNA interactions to build complex DNA-based functional nanoscale structures. However, when DNA functional and responsive units that are based on non-canonical DNA interactions are employed it becomes quite challenging to predict, understand and control their thermodynamics. In response to this limitation, here we demonstrate the use of isothermal urea titration experiments to estimate the free energy involved in a set of DNA-based systems ranging from unimolecular DNA-based nanoswitches to more complex DNA folds (e...
June 9, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28603040/a-real-time-control-system-of-gene-expression-using-ligand-bound-nucleic-acid-aptamer-for-metabolic-engineering
#10
Jing Wang, Xun Cui, Le Yang, Zhe Zhang, Liping Lv, Haoyuan Wang, Zhenmin Zhao, Ningzi Guan, Lichun Dong, Rachel Chen
Artificial control of bio-functions through regulating gene expression is one of the most important and attractive technologies to build novel living systems that are useful in the areas of chemical synthesis, nanotechnology, pharmacology, cell biology. Here, we present a novel real-time control system of gene regulation that includes an enhancement element by introducing duplex DNA aptamers upstream promoter and a repression element by introducing a RNA aptamer upstream ribosome binding site. With the presence of ligands corresponding to the DNA aptamers, the expression of the target gene can be potentially enhanced at the transcriptional level by strengthening the recognition capability of RNAP to the recognition region and speeding up the separation efficiency of the unwinding region due to the induced DNA bubble around the thrombin-bound aptamers; while with the presence of RNA aptamer ligand, the gene expression can be repressed at the translational level by weakening the recognition capability of ribosome to RBS due to the shielding of RBS by the formed aptamer-ligand complex upstream RBS...
June 8, 2017: Metabolic Engineering
https://www.readbyqxmd.com/read/28597122/nanoparticle-in-gel-system-for-delivery-of-vitamin-c-for-topical-application
#11
Sanjukta Duarah, Ramya Devi Durai, VedhaHari B Narayanan
Hyperpigmentation is a dermal condition of melanocyte proliferation, induced by various factors like ultraviolet radiation producing reactive oxygen species, DNA damage, and apoptosis. The application of topical antioxidants through the different type of formulations can help to prevent oxidative damage to the skin. L-ascorbic acid (vitamin C) is a water-soluble compound and the most abundant antioxidant in human skin, but this vitamin is unstable and loses its potency with poor formulation strategies. Nanotechnology has been effectively used to promote stability and therapeutic activity of various drug molecules...
June 8, 2017: Drug Delivery and Translational Research
https://www.readbyqxmd.com/read/28595480/in-vitro-evaluation-of-cobalt-oxide-nanoparticle-induced-toxicity
#12
Mahmoud Abudayyak, Tuba Altincekic Gurkaynak, Gül Özhan
Cobalt oxide (Co3O4) nanoparticles have applications in nanomedicine and nanotechnology; therefore, any possible adverse effects require thorough investigation. The present study investigated the effects of Co3O4 nanoparticles on four different cell lines: liver, HepG2 hepatocellular carcinoma cells; lung, A549 lung carcinoma cells; gastrointestinal, Caco-2 colorectal adenocarcinoma cells; and nervous system, SH-SY5Y neuroblastoma cells. A difference was observed in cell sensitivity toward Co3O4 nanoparticles...
January 1, 2017: Toxicology and Industrial Health
https://www.readbyqxmd.com/read/28585739/iron-oxide-nanoparticles-induced-cytotoxicity-oxidative-stress-and-dna-damage-in-lymphocytes
#13
Usha Singh Gaharwar, Ramovatar Meena, Paulraj Rajamani
Over the past few decades nanotechnology and material science has progressed extremely rapidly. Iron oxide nanoparticles (IONPs) owing to their unique magnetic properties have a great potential for their biomedical and bioengineering applications. However, there is an inevitable need to address the issue of safety and health effects of these nanoparticles. Hence, the present study was aimed to assess the cytotoxic effects of IONPs on rats' lymphocytes. Using different assays, we studied diverse parameters including mitochondrial membrane potential, intracellular accumulation of reactive oxygen species (ROS), lactate dehydrogenase activity, antioxidant enzymes activity and DNA damage measurements...
June 6, 2017: Journal of Applied Toxicology: JAT
https://www.readbyqxmd.com/read/28580123/temporal-control-of-i-motif-switch-lifetimes-for-autonomous-operation-of-transient-dna-nanostructures
#14
L Heinen, A Walther
Functional DNA nanotechnology creates increasingly complex behaviors useful for sensing, actuation or computation, as enabled via the integration of dynamic and responsive structural DNA motifs. However, temporally controlled and dynamic DNA structures with programmable lifetimes, that are able to operate autonomously and self-revert to the starting state are challenging to achieve due to tedious and very system-specific sequence design. Here, we present a straightforward concept to program transient lifetimes into DNA duplexes based on the pH-sensitive DNA i-motif switch...
May 1, 2017: Chemical Science
https://www.readbyqxmd.com/read/28574639/dna-origami-applications-in-cancer-therapy
#15
REVIEW
Anuttara Udomprasert, Thaned Kangsamaksin
Due to the complexity and heterogeneity of cancer, the development of cancer diagnosis and therapy is still progressing, and a complete understanding of cancer biology still remain elusive. Recently, cancer nanomedicine has gained much interest as promising diagnostic and therapeutic strategies as a wide range of nanomaterials possess unique physical properties that can render drug delivery systems more effective and safer. Also, targeted drug delivery and precision medicine have now become a new paradigm in cancer therapy...
June 2, 2017: Cancer Science
https://www.readbyqxmd.com/read/28552053/microneedle-patches-as-drugs-and-vaccine-delivery-platform
#16
Junwei Li, Mingtao Zeng, Hu Shan, Chunyi Tong
BACKGROUND: Transcutaneous delivery is the ideal method for delivering therapeutic reagents or vaccines into skin. With their promise of self-administration, cost-effective and high efficiency, microneedle patches have been studied intensively as therapeutic and vaccination delivery platform that replaces injection by syringe. This review aims to summarize the recent advancements of microneedle patches in application for drugs and vaccine delivery. METHODS: We review the most of recently published papers on microneedle patches, summarized their evolution, classification, state- of the-art capabilities and discuss promising application in drugs and vaccine delivery...
May 26, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28544553/dna-barcoding-meets-nanotechnology-development-of-a-universal-colorimetric-test-for-food-authentication
#17
Paola Valentini, Andrea Galimberti, Valerio Mezzasalma, Fabrizio De Mattia, Maurizio Casiraghi, Massimo Labra, Pier Paolo Pompa
Food trade globalization and the growing demand for selected food varieties have led to the intensification of adulteration cases, especially in the form of species substitution and mixing with cheaper taxa. This phenomenon has huge economic impact and sometimes even public health implications. DNA barcoding represents a well-proven molecular approach to assess the authenticity of food items, although its use is hampered by analytical constraints and timeframes that are often prohibitive for the food market...
May 23, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28521201/validation-of-the-use-of-an-artificial-mitochondrial-reporter-dna-vector-containing-a-cytomegalovirus-promoter-for-mitochondrial-transgene-expression
#18
Yuma Yamada, Takuya Ishikawa, Hideyoshi Harashima
Mitochondria have their own gene expression system that is independent of the nuclear system, and control cellular functions in cooperation with the nucleus. While a number of useful technologies for achieving nuclear transgene expression have been reported, only a few have focused on mitochondria. In this study, we validated the utility of an artificial mitochondrial DNA vector with a virus promoter on mitochondrial transgene expression. We designed and constructed pCMV-mtLuc (CGG) that contains a CMV promotor derived from Cytomegalovirus and an artificial mitochondrial genome with a NanoLuc (Nluc) luciferase gene that records adjustments to the mitochondrial codon system...
May 10, 2017: Biomaterials
https://www.readbyqxmd.com/read/28520255/core-shell-and-layer-by-layer-assembly-of-3d-dna-crystals
#19
Ronald McNeil, Paul J Paukstelis
A long-standing goal of DNA nanotechnology has been to assemble 3D crystals to be used as molecular scaffolds. The DNA 13-mer, BET66, self-assembles via Crick-Watson and noncanonical base pairs to form crystals. The crystals contain solvent channels that run through them in multiple directions, allowing them to accommodate tethered guest molecules. Here, the first example of biomacromolecular core-shell crystal growth is described, by showing that these crystals can be assembled with two or more discrete layers...
May 18, 2017: Advanced Materials
https://www.readbyqxmd.com/read/28514955/label-free-biosensing-of-salmonella-enterica-serovars-at-single-cell-level
#20
Bin Wang, Bosoon Park, Bingqian Xu, Yongkuk Kwon
BACKGROUND: The emerging nanotechnologies have greatly facilitated the development of label-free biosensors. The atomic force microscopy (AFM) has been used to study the molecular mechanism of the reactions for protein and aptamers. The surface plasmon resonance (SPR) have been used in fast detections of various pathogens such as bacteria. This study used both AFM and SPR to investigate the complex reactions between aptamers and outer membrane proteins (OMPs) on the surface of S. typhimurium...
May 17, 2017: Journal of Nanobiotechnology
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