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https://www.readbyqxmd.com/read/28639303/an-addressable-2d-heterogeneous-nanoreactor-to-study-the-enzyme-catalyzed-reaction-at-the-interface
#1
Dianming Wang, Guoliang Zhang, Yiyang Zhang, Ling Xin, Yuanchen Dong, Yang Liu, Dongsheng Liu
Membrane plays significant role in cellular enzymatic reactions. To better understand its function on membrane integral or bound enzymes, DNA origami and frame-guided assembly strategy are combined to construct a given-size, addressable enzyme-containing nanomembrane as a heterogeneous reactor to explore the enzymatic catalyst reaction on the membrane. The enzymes in the membrane are located precisely. This new kind of membrane can enrich hydrophobic substrate molecules in aqueous solution to the embedded enzymes...
June 22, 2017: Small
https://www.readbyqxmd.com/read/28629010/fabrication-of-dna-nanotubes-with-an-array-of-exterior-magnetic-nanoparticles
#2
Adele Rafati, Ali Zarrabi, Pooria Gill
Described here a methodology for arraying of magnetic nanoparticles (MNPs) on the surface of DNA nanotubes (DNTs). Positioning of magnetic nanoparticles at exterior surface of DNTs were shaped after self-assembling of oligonucleotide staples within an M13mp18 DNA scaffold via an origami process. The staples were partially labeled with biotin to be arrayed at the surface of DNTs. Gel retardation assay of the DNTs carrying magnetic nanoparticles indicated a reversely behavioral electrophoretic movement in comparison to the nanotubes have been demonstrated previously...
October 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28620911/distortion-of-dna-origami-on-graphene-imaged-with-advanced-tem-techniques
#3
Yoones Kabiri, Adithya N Ananth, Jaco van der Torre, Allard Katan, Jin-Yong Hong, Sairam Malladi, Jing Kong, Henny Zandbergen, Cees Dekker
While graphene may appear to be the ultimate support membrane for transmission electron microscopy (TEM) imaging of DNA nanostructures, very little is known if it poses an advantage over conventional carbon supports in terms of resolution and contrast. Microscopic investigations are carried out on DNA origami nanoplates that are supported onto freestanding graphene, using advanced TEM techniques, including a new dark-field technique that is recently developed in our lab. TEM images of stained and unstained DNA origami are presented with high contrast on both graphene and amorphous carbon membranes...
June 16, 2017: Small
https://www.readbyqxmd.com/read/28618781/cavity-type-dna-origami-based-plasmonic-nanostructures-for-raman-enhancement
#4
Mengzhen Zhao, Xu Wang, Shaokang Ren, Yikang Xing, Jun Wang, Nan Teng, Dongxia Zhao, Wei Liu, Dan Zhu, Shao Su, Jiye Shi, Shiping Song, Lihua Wang, Jie Chao, Lianhui Wang
DNA origami has been established as addressable templates for site-specific anchoring of gold nanoparticles (AuNPs). Given that AuNPs are assembled by charged DNA oligonucleotides, it is important to reduce the charge repulsion between AuNPs-DNA and the template to realize high yields. Herein, we developed a cavity-type DNA origami as templates to organize 30-nm AuNPs, which formed dimer and tetramer plasmonic nanostructures. Transmission electron microscopy (TEM) images showed that high yields of dimer and tetramer plasmonic nanostructures were obtained by using the cavity-type DNA origami as the template...
June 16, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28616969/ph-driven-actuation-of-dna-origami-via-parallel-i-motif-sequences-in-solution-and-on-surfaces
#5
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/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/28605177/dna-origami-scaffolds-for-creating-higher-order-structures
#7
Fan Hong, Fei Zhang, Yan Liu, Hao Yan
DNA has become one of the most extensively used molecular building blocks for engineering self-assembling materials. DNA origami is a technique that uses hundreds of short DNA oligonucleotides, called staple strands, to fold a long single-stranded DNA, which is called a scaffold strand, into various designer nanoscale architectures. DNA origami has dramatically improved the complexity and scalability of DNA nanostructures. Due to its high degree of customization and spatial addressability, DNA origami provides a versatile platform with which to engineer nanoscale structures and devices that can sense, compute, and actuate...
June 12, 2017: Chemical Reviews
https://www.readbyqxmd.com/read/28598482/correction-structural-stability-of-dna-origami-nanostructures-in-the-presence-of-chaotropic-agents
#8
Saminathan Ramakrishnan, Georg Krainer, Guido Grundmeier, Michael Schlierf, Adrian Keller
Correction for 'Structural stability of DNA origami nanostructures in the presence of chaotropic agents' by Saminathan Ramakrishnan et al., Nanoscale, 2016, 8, 10398-10405.
June 9, 2017: Nanoscale
https://www.readbyqxmd.com/read/28586869/unfolding-the-clinical-potential-of-dna-and-protein-origami
#9
Tracy Hampton
No abstract text is available yet for this article.
June 6, 2017: JAMA: the Journal of the American Medical Association
https://www.readbyqxmd.com/read/28582611/dynamic-dna-origami-device-for-measuring-compressive-depletion-forces
#10
Michael W Hudoba, Yi Luo, Angelita Zacharias, Michael G Poirier, Carlos E Castro
The ability to self-assemble nanodevices with programmed structural dynamics that can sense and respond to the local environment could enable transformative applications in fields including molecular robotics, nanomanufacturing, and nanomedicine. The responsive function of biomolecules is often driven by alterations in conformational distributions mediated by highly sensitive interactions with the local environment. Here, we mimic this approach by engineering inherent nanoscale structural dynamics (nanodynamics) into a DNA device that exhibits a distribution of conformations including two stable states separated by a transition state where the energy barrier height is on the scale of the thermal energy, kBT = 4...
June 9, 2017: ACS Nano
https://www.readbyqxmd.com/read/28581004/dna-origami-gold-nanorod-hybrid-nanostructures-for-the-circumvention-of-drug-resistance
#11
Linlin Song, Qiao Jiang, Jianbing Liu, Na Li, Qing Liu, Luru Dai, Yuan Gao, Weili Liu, Dongsheng Liu, Baoquan Ding
We herein demonstrate that DNA origami can work as a multifunctional platform integrating a chemotherapeutic drug (doxorubicin), gold nanorods and a tumour-specific aptamer MUC-1, to realize the effective circumvention of drug resistance. Doxorubicin (DOX) was loaded efficiently onto DNA origami through base pair intercalation and surface-modified gold nanorods (AuNRs) were assembled onto the DNA origami through DNA hybridization. Due to the active targeting effect of the assembled aptamers, the multifunctional nanostructures achieved increased cellular internalization of DOX and AuNRs...
June 5, 2017: Nanoscale
https://www.readbyqxmd.com/read/28574639/dna-origami-applications-in-cancer-therapy
#12
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/28548145/stepping-operation-of-a-rotary-dna-origami-device
#13
Takahiro Tomaru, Yuki Suzuki, Ibuki Kawamata, Shin-Ichiro M Nomura, Satoshi Murata
We constructed a rotary DNA origami device and tested its stepping operation on a mica substrate by sequential strand displacement with four different sets of signal DNA strands. This work paves the way for building a variety of dynamic rotary DNA nanodevices which respond to multiple signals.
May 26, 2017: Chemical Communications: Chem Comm
https://www.readbyqxmd.com/read/28530665/molecular-engineering-of-chiral-colloidal-liquid-crystals-using-dna-origami
#14
Mahsa Siavashpouri, Christian H Wachauf, Mark J Zakhary, Florian Praetorius, Hendrik Dietz, Zvonimir Dogic
Establishing precise control over the shape and the interactions of the microscopic building blocks is essential for design of macroscopic soft materials with novel structural, optical and mechanical properties. Here, we demonstrate robust assembly of DNA origami filaments into cholesteric liquid crystals, one-dimensional supramolecular twisted ribbons and two-dimensional colloidal membranes. The exquisite control afforded by the DNA origami technology establishes a quantitative relationship between the microscopic filament structure and the macroscopic cholesteric pitch...
May 22, 2017: Nature Materials
https://www.readbyqxmd.com/read/28522808/plasmonics-enhanced-smartphone-fluorescence-microscopy
#15
Qingshan Wei, Guillermo Acuna, Seungkyeum Kim, Carolin Vietz, Derek Tseng, Jongjae Chae, Daniel Shir, Wei Luo, Philip Tinnefeld, Aydogan Ozcan
Smartphone fluorescence microscopy has various applications in point-of-care (POC) testing and diagnostics, ranging from e.g., quantification of immunoassays, detection of microorganisms, to sensing of viruses. An important need in smartphone-based microscopy and sensing techniques is to improve the detection sensitivity to enable quantification of extremely low concentrations of target molecules. Here, we demonstrate a general strategy to enhance the detection sensitivity of a smartphone-based fluorescence microscope by using surface-enhanced fluorescence (SEF) created by a thin metal-film...
May 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28518172/super-resolution-microscopy-with-dna-paint
#16
Joerg Schnitzbauer, Maximilian T Strauss, Thomas Schlichthaerle, Florian Schueder, Ralf Jungmann
Super-resolution techniques have begun to transform biological and biomedical research by allowing researchers to observe structures well below the classic diffraction limit of light. DNA points accumulation for imaging in nanoscale topography (DNA-PAINT) offers an easy-to-implement approach to localization-based super-resolution microscopy, owing to the use of DNA probes. In DNA-PAINT, transient binding of short dye-labeled ('imager') oligonucleotides to their complementary target ('docking') strands creates the necessary 'blinking' to enable stochastic super-resolution microscopy...
June 2017: Nature Protocols
https://www.readbyqxmd.com/read/28507286/complexes-of-dna-with-fluorescent-dyes-are-effective-reagents-for-detection-of-autoimmune-antibodies
#17
Ivana Domljanovic, Annika Carstens, Anders Okholm, Jørgen Kjems, Christoffer Tandrup Nielsen, Niels H H Heegaard, Kira Astakhova
To date, there are multiple assays developed that detect and quantify antibodies in biofluids. Nevertheless, there is still a lack of simple approaches that specifically detect autoimmune antibodies to double-stranded DNA. Herein we investigate the potential of novel nucleic acid complexes as targets for these antibodies. This is done in a simple, rapid and specific immunofluorescence assay. Specifically, employing 3D nanostructures (DNA origami), we present a new approach in the detection and study of human antibodies to DNA...
May 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28491290/dna-nanochannels
#18
REVIEW
Dianming Wang, Yiyang Zhang, Dongsheng Liu
Transmembrane proteins are mostly nanochannels playing a highly important role in metabolism. Understanding their structures and functions is vital for revealing life processes. It is of fundamental interest to develop chemical devices to mimic biological channels. Structural DNA nanotechnology has been proven to be a promising method for the preparation of fine DNA nanochannels as a result of the excellent properties of DNA molecules. This review presents the development history and current situation of three different types of DNA nanochannel: tile-based nanotube, DNA origami nanochannel, and DNA bundle nanochannel...
2017: F1000Research
https://www.readbyqxmd.com/read/28482032/structure-and-conformational-dynamics-of-scaffolded-dna-origami-nanoparticles
#19
Keyao Pan, William P Bricker, Sakul Ratanalert, Mark Bathe
Synthetic DNA is a highly programmable nanoscale material that can be designed to self-assemble into 3D structures that are fully determined by underlying Watson-Crick base pairing. The double crossover (DX) design motif has demonstrated versatility in synthesizing arbitrary DNA nanoparticles on the 5-100 nm scale for diverse applications in biotechnology. Prior computational investigations of these assemblies include all-atom and coarse-grained modeling, but modeling their conformational dynamics remains challenging due to their long relaxation times and associated computational cost...
May 8, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28474522/shear-dependent-lc-purification-of-an-engineered-dna-nanoswitch-and-implications-for-dna-origami
#20
Ken Halvorsen, Megan E Kizer, Xing Wang, Arun Richard Chandrasekaran, Maria Basanta-Sanchez
As DNA nanotechnology matures, there is increasing need for fast, reliable, and automated purification methods. Here, we develop UHPLC methods to purify self-assembled DNA nanoswitches, which are formed using DNA origami approaches and are designed to change conformations in response to a binding partner. We found that shear degradation hindered LC purification of the DNA nanoswitches, removing oligonucleotides from the scaffold strand and causing loss of function. However, proper choice of column, flow rate, and buffers enabled robust and automated purification of DNA nanoswitches without loss of function in under a half hour...
June 6, 2017: Analytical Chemistry
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