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Duplex systems

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https://www.readbyqxmd.com/read/29145633/the-initiation-propagation-and-dynamics-of-crispr-spycas9-r-loop-complex
#1
Yan Zeng, Yang Cui, Yong Zhang, Yanruo Zhang, Meng Liang, Hui Chen, Jie Lan, Guangtao Song, Jizhong Lou
CRISPR-Cas9 system has been widely used for efficient genome editing. Although the structures of Cas9 protein in complex with single-guided RNA (sgRNA) and target DNA have been resolved, the molecular details about the formation of Cas9 endonuclease R-loop structure remain elusive. Here we examine the DNA cleavage activities of Streptococcus pyogenes Cas9 (SpyCas9) and its mutants using various target sequences and study the conformational dynamics of R-loop structure during target binding using single-molecule fluorescence energy transfer (smFRET) technique...
November 14, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29145074/ratiometric-electrochemical-assay-for-sensitive-detecting-microrna-based-on-dual-amplification-mechanism-of-duplex-specific-nuclease-and-hybridization-chain-reaction
#2
Yan-Hong Yuan, Bao-Zhu Chi, Shao-Hua Wen, Ru-Ping Liang, Zhi-Mei Li, Jian-Ding Qiu
We propose a ratiometric electrochemical assay for detecting microRNA (miRNA) on the basis of dual-amplification mechanism by using distinguishable electrochemical signals from thionine (Thi) and ferrocene (Fc). The thiol-modified and ferrocene-labeled hairpin capture probes (CP) are first immobilized on an Au electrode via Au-S reaction. The target miRNA hybridizes with CP and unfolding the hairpin structure of CP to form miRNA-DNA duplexes. Then, kamchatka crab duplex specific nuclease (DSN) specifically cleaves the DNA in miRNA-DNA duplexes, leading to the release of miRNA and another cleaves cycle, meanwhile, numerous Fc leaves away from the electrode surface and leads to the signal-off of Fc...
November 8, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29134201/pushing-the-limits-of-photoreception-in-twilight-conditions-the-rod-like-cone-retina-of-the-deep-sea-pearlsides
#3
Fanny de Busserolles, Fabio Cortesi, Jon Vidar Helvik, Wayne I L Davies, Rachel M Templin, Robert K P Sullivan, Craig T Michell, Jessica K Mountford, Shaun P Collin, Xabier Irigoien, Stein Kaartvedt, Justin Marshall
Most vertebrates have a duplex retina comprising two photoreceptor types, rods for dim-light (scotopic) vision and cones for bright-light (photopic) and color vision. However, deep-sea fishes are only active in dim-light conditions; hence, most species have lost their cones in favor of a simplex retina composed exclusively of rods. Although the pearlsides, Maurolicus spp., have such a pure rod retina, their behavior is at odds with this simplex visual system. Contrary to other deep-sea fishes, pearlsides are mostly active during dusk and dawn close to the surface, where light levels are intermediate (twilight or mesopic) and require the use of both rod and cone photoreceptors...
November 2017: Science Advances
https://www.readbyqxmd.com/read/29120162/y-shaped-dna-duplex-structure-triggered-gold-nanoparticle-dimers-for-ultrasensitive-colorimetric-detection-of-nucleic-acid-with-the-dark-field-microscope
#4
Jingjing Li, Qingyun Liu, Hongyan Xi, Xiangcong Wei, Zhengbo Chen
Herein, we present a novel gold nanoparticle (AuNP) enumeration-based colorimetric aptamer biosensor for ultrasensitive detection of nucleic acid. This AuNP enumeration-based colorimetric method takes advantages of the distinctive and strong localized surface plasmon resonance light scattering with the dark-field microscope. In our model system, first, cost-effective DNA1 instead of expensive 2-thioethyl ether acetic acid was capped on the surface of AuNPs to form a dense DNA1 layer. Then, two DNA strands (DNA2 and DNA3) in two different solutions were separately asymmetrically functionalized on the AuNPs capped dense DNA1 layer...
November 17, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29115044/a-leg-ulcer-with-pulsating-varicose-veins%C3%A2-%C3%A2-from-the-legs-to-the-heart
#5
Sabrina Johanna Swoboda, Hauke Schumann, Dimitra Kiritsi
We present the case of a 58-year-old man who presented to our wound care centre with a 7 -month history of a progressive unilateral leg ulcer. He reported intermittent, heavy bleeding at the ulcer. The duplex sonography showed a bilateral incompetence of the saphenofemoral junctions and the entire course of the great saphenous veins and, surprisingly, also a bilateral reversed arterial-like pulsating flow in the great and small saphenous veins as well as in the deep veins of the lower extremities. During cardiac examination by auscultation and echocardiography, we detected a previously undescribed severe tricuspid insufficiency with strongly reduced systolic ejection of both the left and the right ventricle and repercussions on the peripheral venous system as a cause for the pulsating veins...
November 7, 2017: International Wound Journal
https://www.readbyqxmd.com/read/29109776/sequential-delivery-of-cyclopeptide-ra-v-and-doxorubicin-for-combination-therapy-on-resistant-tumor-and-in-situ-monitoring-of-cytochrome-c-release
#6
Huachao Chen, Yurong Wang, Yongrong Yao, Shenglin Qiao, Hao Wang, Ninghua Tan
A programmed drug delivery system that can achieve sequential release of multiple therapeutics under different stimulus holds great promise to enhance the treatment efficacy and overcome multi-drug resistance (MDR) in tumor. Herein, multi-organelle-targeted and pH/ cytochrome c (Cyt c) dual-responsive nanoparticles were designed for combination therapy on resistant tumor. In this system (designated DGLipo NPs), doxorubicin (Dox) was intercalated into the DNA duplex containing a Cyt c aptamer, which subsequently loaded in the dendrigraftpoly-L-lysines (DGL) cores of DGLipo NPs, while cyclopeptide RA-V was doped into the pH-sensitive liposomal shells...
2017: Theranostics
https://www.readbyqxmd.com/read/29103092/stress-induced-oryza-sativa-ruvbl1a-is-dna-independent-atpase-and-unwinds-dna-duplex-in-3-to-5-direction
#7
Shabnam K Saifi, Nishat Passricha, Renu Tuteja, Narendra Tuteja
RuvB, a member of AAA+ (ATPases Associated with diverse cellular Activities) superfamily of proteins, is essential, highly conserved and multifunctional in nature as it is involved in DNA damage repair, mitotic assembly, switching of histone variants and assembly of telomerase core complex. RuvB family is widely studied in various systems such as Escherichia coli, yeast, human, Drosophila, Plasmodium falciparum and mouse, but not well studied in plants. We have studied the transcript level of rice homologue of RuvB gene (OsRuvBL1a) under various abiotic stress conditions, and the results suggest that it is upregulated under salinity, cold and heat stress...
November 4, 2017: Protoplasma
https://www.readbyqxmd.com/read/29098537/duplex-tear-film-evaporation-analysis
#8
M R Stapf, R J Braun, P E King-Smith
Tear film thinning, hyperosmolarity, and breakup can cause irritation and damage to the human eye, and these form an area of active investigation for dry eye syndrome research. Recent research demonstrates that deficiencies in the lipid layer may cause locally increased evaporation, inducing conditions for breakup. In this paper, we explore the conditions for tear film breakup by considering a model for tear film dynamics with two mobile fluid layers, the aqueous and lipid layers. In addition, we include the effects of osmosis, evaporation as modified by the lipid, and the polar portion of the lipid layer...
November 2, 2017: Bulletin of Mathematical Biology
https://www.readbyqxmd.com/read/29092253/self-homodyne-system-for-next-generation-intra-datacenter-optical-interconnects
#9
Mohammed Y S Sowailem, Eslam El-Fiky, Mohamed Morsy-Osman, Qunbi Zhuge, Thang M Hoang, Stephane Paquet, Carl Paquet, Ian Woods, Odile Liboiron-Ladouceur, David V Plant
We propose a self-homodyne system for next generation intra-datacenter networking. The proposed system has a higher spectral efficiency for the modulated signal compared to the intensity-modulation/direct-detection (IM/DD) systems and uses digital signal processing of reduced complexity compared to a conventional coherent system. The concept of the proposed system is to send the modulated signal and a tone originating from the same laser over the full-duplex fiber with the aid of circulators to be used remotely at the receiver for coherent detection...
October 30, 2017: Optics Express
https://www.readbyqxmd.com/read/29089753/high-prevalence-of-copd-in-atherosclerosis-patients
#10
Izabela Tuleta, Tarik Farrag, Laura Busse, Carmen Pizarro, Christian Schaefer, Simon Pingel, Georg Nickenig, Dirk Skowasch, Nadjib Schahab
Atherosclerosis and COPD are both systemic inflammatory diseases that may influence each other. The aim of the present study was to determine the prevalence of COPD in patients with cerebral and/or peripheral artery disease and to assess factors associated with the presence of COPD. Following the diagnosis of cerebral and/or peripheral artery disease by means of duplex sonography, 166 consecutive patients underwent body plethysmography with capillary blood gas analysis. Thereafter, blood tests with determination of different parameters such as lipid profile, inflammatory and coagulation markers were conducted in remaining 136 patients who fulfilled inclusion criteria of the study...
2017: International Journal of Chronic Obstructive Pulmonary Disease
https://www.readbyqxmd.com/read/29075528/ultrasound-diagnostics-of-a-spontaneous-arteriovenous-fistula-of-the-head-and-neck
#11
Maria Vadimovna Zakharkina, Andrey Olegovich Chechetkin, Marina Victorovna Krotenkova, Rodion Nikolaevich Konovalov
An arteriovenous fistula is an abnormal connection between the arterial and venous systems. In the literature, there are well-described ultrasound findings of iatrogenic arteriovenous fistula as a potential complication from percutaneous transarterial or transvenous procedures. The most important sign is direct visualization of the fistula in the place of the access site. It is necessary to look for secondary signs of arterialization of the veins, which can suggest a diagnosis of an arteriovenous fistula. However, the accuracy and diagnostic quality of duplex scanning in the diagnostics of a congenital or spontaneous arteriovenous fistula of the head and neck area in adults have been poorly described in the literature...
September 2017: Journal of Ultrasonography
https://www.readbyqxmd.com/read/29073517/quantitative-detection-of-exosomal-microrna-extracted-from-human-blood-based-on-surface-enhanced-raman-scattering
#12
Dandan Ma, Caixia Huang, Jing Zheng, Jianru Tang, Jishan Li, Jinfeng Yang, Ronghua Yang
Since the nature of the exosomal lipid bilayer can allow miRNAs to be protected from degradation by cellular RNAses in body fluids, exosomal microRNA (miRNA) has become an ideal source of non-invasive biomarkers for the early diagnosis and prognosis. In this paper, a new surface-enhanced Raman scattering (SERS) analysis strategy combining stable SERS reporter element and duplex-specific nuclease (DSN)-assisted signal amplification for quantitative detection of exosomal miRNA extracted from human blood is proposed...
October 11, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/29073174/asthma-is-associated-with-atherosclerotic-artery-changes
#13
COMPARATIVE STUDY
Izabela Tuleta, Dirk Skowasch, Florian Aurich, Nicolas Eckstein, Robert Schueler, Carmen Pizarro, Nadjib Schahab, Georg Nickenig, Christian Schaefer, Simon Pingel
Asthma is a chronic airway inflammation with a potential systemic impact. Atherosclerosis is a chronic inflammatory artery disease. The aim of our study was to prove if there is a correlation between the occurrence of asthma and increased atherosclerotic vessel disorders. Vessel status was compared between mild-to-moderate, severe allergic asthma and matched controls. Measurements of artery stiffness were calculated by central pulse wave velocity, ultrasonographic strain imaging and ankle-brachial index. Atherosclerotic plaque burden was assessed by colour-coded duplex sonography...
2017: PloS One
https://www.readbyqxmd.com/read/29069894/self-replicating-catalyzed-hairpin-assembly-for-rapid-signal-amplification
#14
Jianyuan Dai, Hongfei He, Zhijuan Duan, Yong Guo, Dan Xiao
A rapid signal amplification system based on the self-replicating catalyzed hairpin assembly is reported in which two hairpins, H1 and H2, were well-designed in which two split target/trigger DNA and two split G-quadruplex sequences were respectively integrated into H1 and H2. Target/trigger DNA can be cyclically used in this system to form the duplex DNA assemblies (H1-H2), which will bring the two G-quadruplex fragments into close-enough proximity to induce the formation of intact G-quadruplex as a colorimetric signal readout...
November 7, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29067439/apolipoprotein-m-increases-the-expression-of-vitamin-d-receptor-mrna-in-colorectal-cancer-cells-detected-with-duplex-fluorescence-reverse-transcription-quantitative-polymerase-chain-reaction
#15
Miao-Mei Yu, Shuang Yao, Kai-Ming Luo, Qin-Feng Mu, Yang Yu, Guang-Hua Luo, Ning Xu
Apolipoprotein M (ApoM) and the vitamin D receptor (VDR) are apolipoproteins predominantly presenting in high-density lipoprotein (HDL) and a karyophilic protein belonging to the steroid‑thyroid receptor superfamily, respectively. Previous studies have demonstrated that ApoM and VDR are associated with cholesterol metabolism, immune and colorectal cancer regulation. In order to investigate whether ApoM affected the expression of VDR in colorectal cancer cells, a single‑tube duplex fluorescence reverse transcription‑quantitative polymerase chain reaction (RT‑qPCR) system was developed to simultaneously detect the mRNA levels of VDR and GAPDH in HT‑29 cells overexpressing ApoM...
August 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29063768/the-role-of-repulsion-in-colloidal-crystal-engineering-with-dna
#16
Soyoung E Seo, Tao Li, Andrew J Senesi, Chad A Mirkin, Byeongdu Lee
Hybridization interactions between DNA-functionalized nanoparticles (DNA-NPs) can be used to program the crystallization behavior of superlattices, yielding access to complex three-dimensional structures with more than 30 different lattice symmetries. The first superlattice structures using DNA-NPs as building blocks were identified almost a decade ago, yet the role of repulsive interactions in guiding structure formation is still largely unexplored. Here, a comprehensive approach is taken to study the role of repulsion in the assembly behavior of DNA-NPs, enabling the calculation of interparticle interaction potentials based on experimental results...
November 8, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/29059300/thioflavin-t-binds-dimeric-parallel-stranded-ga-containing-non-g-quadruplex-dnas-a-general-approach-to-lighting-up-double-stranded-scaffolds
#17
Shuangna Liu, Pai Peng, Huihui Wang, Lili Shi, Tao Li
A molecular rotor thioflavin T (ThT) is usually used as a fluorescent ligand specific for G-quadruplexes. Here, we demonstrate that ThT can tightly bind non-G-quadruplex DNAs with several GA motifs and dimerize them in a parallel double-stranded mode, accompanied by over 100-fold enhancement in the fluorescence emission of ThT. The introduction of reverse Watson-Crick T-A base pairs into these dimeric parallel-stranded DNA systems remarkably favors the binding of ThT into the pocket between G•G and A•A base pairs, where ThT is encapsulated thereby restricting its two rotary aromatic rings in the excited state...
October 20, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29053602/an-objective-balance-error-scoring-system-for-sideline-concussion-evaluation-using-duplex-kinect-sensors
#18
Mengqi Zhu, Zhonghua Huang, Chao Ma, Yinlin Li
Sports-related concussion is a common sports injury that might induce potential long-term consequences without early diagnosis and intervention in the field. However, there are few options of such sensor systems available. The aim of the study is to propose and validate an automated concussion administration and scoring approach, which is objective, affordable and capable of detecting all balance errors required by the balance error scoring system (BESS) protocol in the field condition. Our approach is first to capture human body skeleton positions using two Microsoft Kinect sensors in the proposed configuration and merge the data by a custom-made algorithm to remove the self-occlusion of limbs...
October 20, 2017: Sensors
https://www.readbyqxmd.com/read/29047646/full-duplex-radio-over-fiber-system-with-tunable-millimeter-wave-signal-generation-and-wavelength-reuse-for-upstream-signal
#19
Yiqun Wang, Li Pei, Jing Li, Yueqin Li
A full-duplex radio-over-fiber system is proposed, which provides both the generation of a millimeter-wave (mm-wave) signal with tunable frequency multiplication factors (FMFs) and wavelength reuse for uplink data. A dual-driving Mach-Zehnder modulator and a phase modulator are cascaded to form an optical frequency comb. An acousto-optic tunable filter based on a uniform fiber Bragg grating (FBG-AOTF) is employed to select three target optical sidebands. Two symmetrical sidebands are chosen to generate mm waves with tunable FMFs up to 16, which can be adjusted by changing the frequency of the applied acoustic wave...
June 10, 2017: Applied Optics
https://www.readbyqxmd.com/read/29037359/thigh-compartment-syndrome-during-extracorporeal-life-support
#20
Maximilian Kreibich, Martin Czerny, Christoph Benk, Friedhelm Beyersdorf, Bartosz Rylski, Georg Trummer
OBJECTIVE: The aim of this study was to report our experience with patients on the extracorporeal life support system (ECLS) who presented with thigh compartment syndrome, a yet unreported complication. METHODS: A retrospective analysis was performed from April 2003 to April 2017 to identify patients who presented to our department for treatment of acute compartment syndrome of the thigh after cannulation of the ECLS through the femoral artery and vein. RESULTS: Five patients, aged 30 to 84 years, who developed thigh compartment syndrome during ECLS therapy were identified...
November 2017: Journal of Vascular Surgery. Venous and Lymphatic Disorders
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