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https://www.readbyqxmd.com/read/28107744/sensitive-detection-of-t4-polynucleotide-kinase-activity-based-on-multifunctional-magnetic-probes-and-polymerization-nicking-reactions-mediated-hyperbranched-rolling-circle-amplification
#1
Xia Li, Xiaowen Xu, Juan Song, Qingwang Xue, Chenzhong Li, Wei Jiang
T4 polynucleotide kinase (PNK) plays critical roles in regulating DNA phosphorylation modes during the repair of DNA lesions. The aberrant activity of T4 PNK has been proven to be associated with a variety of human pathologies. Sensitive detection of T4 PNK activity is critical to both clinical diagnosis and therapeutics. Herein, a background-eliminated fluorescence assay for sensitive detection of T4 PNK activity has been developed by multifunctional magnetic probes and polymerization nicking reactions mediated hyperbranched rolling circle amplification (HRCA)...
January 12, 2017: Biosensors & Bioelectronics
https://www.readbyqxmd.com/read/28107688/sequencing-and-de-novo-assembly-of-visceral-mass-transcriptome-of-the-critically-endangered-land-snail-satsuma-myomphala-annotation-and-ssr-discovery
#2
Se Won Kang, Bharat Bhusan Patnaik, Hee-Ju Hwang, So Young Park, Jong Min Chung, Dae Kwon Song, Hongray Howrelia Patnaik, Jae Bong Lee, Changmu Kim, Soonok Kim, Young-Su Park, Hong Seog Park, Seung-Hwan Park, Yeon Soo Han, Jun Sang Lee, Yong Seok Lee
Satsuma myomphala is critically endangered through loss of natural habitats, predation by natural enemies, and indiscriminate collection. It is a protected species in Korea but lacks genomic resources for an understanding of varied functional processes attributable to evolutionary success under natural habitats. For assessing the genetic information of S. myomphala, we performed for the first time, de novo transcriptome sequencing and functional annotation of expressed sequences using Illumina Next-Generation Sequencing (NGS) platform and bioinformatics analysis...
October 29, 2016: Comparative Biochemistry and Physiology. Part D, Genomics & Proteomics
https://www.readbyqxmd.com/read/28107528/nasopharyngeal-microbiome-diversity-changes-over-time-in-children-with-asthma
#3
Marcos Pérez-Losada, Lamia Alamri, Keith A Crandall, Robert J Freishtat
BACKGROUND: The nasopharynx is a reservoir for pathogens associated with respiratory illnesses such as asthma. Next-generation sequencing (NGS) has been used to characterize the nasopharyngeal microbiome of infants and adults during health and disease; less is known, however, about the composition and temporal dynamics (i.e., longitudinal variation) of microbiotas from children and adolescents. Here we use NGS technology to characterize the nasopharyngeal microbiomes of asthmatic children and adolescents (6 to 18 years) and determine their stability over time...
2017: PloS One
https://www.readbyqxmd.com/read/28107419/a-new-israeli-tobamovirus-isolate-infects-tomato-plants-harboring-tm-22-resistance-genes
#4
Neta Luria, Elisheva Smith, Victoria Reingold, Ilana Bekelman, Moshe Lapidot, Ilan Levin, Nadav Elad, Yehudit Tam, Noa Sela, Ahmad Abu-Ras, Nadav Ezra, Ami Haberman, Liron Yitzhak, Oded Lachman, Aviv Dombrovsky
An outbreak of a new disease infecting tomatoes occurred in October-November 2014 at the Ohad village in Southern Israel. Symptomatic plants showed a mosaic pattern on leaves accompanied occasionally by narrowing of leaves and yellow spotted fruit. The disease spread mechanically and rapidly reminiscent of tobamovirus infection. Epidemiological studies showed the spread of the disease in various growing areas, in the South and towards the Southeast and Northern parts of the country within a year. Transmission electron microscope (TEM) analysis showed a single rod-like form characteristic to the Tobamovirus genus...
2017: PloS One
https://www.readbyqxmd.com/read/28107347/whole-genome-amplification-and-reduced-representation-genome-sequencing-of-schistosoma-japonicum-miracidia
#5
Jonathan A Shortt, Daren C Card, Drew R Schield, Yang Liu, Bo Zhong, Todd A Castoe, Elizabeth J Carlton, David D Pollock
BACKGROUND: In areas where schistosomiasis control programs have been implemented, morbidity and prevalence have been greatly reduced. However, to sustain these reductions and move towards interruption of transmission, new tools for disease surveillance are needed. Genomic methods have the potential to help trace the sources of new infections, and allow us to monitor drug resistance. Large-scale genotyping efforts for schistosome species have been hindered by cost, limited numbers of established target loci, and the small amount of DNA obtained from miracidia, the life stage most readily acquired from humans...
January 20, 2017: PLoS Neglected Tropical Diseases
https://www.readbyqxmd.com/read/28106800/frequency-and-pathological-phenotype-of-bovine-astrovirus-ch13-neuros1-infection-in-neurologically-diseased-cattle-towards-assessment-of-causality
#6
Senija Selimovic-Hamza, Céline L Boujon, Monika Hilbe, Anna Oevermann, Torsten Seuberlich
Next-generation sequencing (NGS) has opened up the possibility of detecting new viruses in unresolved diseases. Recently, astrovirus brain infections have been identified in neurologically diseased humans and animals by NGS, among them bovine astrovirus (BoAstV) CH13/NeuroS1, which has been found in brain tissues of cattle with non-suppurative encephalitis. Only a few studies are available on neurotropic astroviruses and a causal relationship between BoAstV CH13/NeuroS1 infections and neurological disease has been postulated, but remains unproven...
January 18, 2017: Viruses
https://www.readbyqxmd.com/read/28106782/from-clinical-standards-to-translating-next-generation-sequencing-research-into-patient-care-improvement-for-hepatobiliary-and-pancreatic-cancers
#7
REVIEW
Ioannis D Kyrochristos, Georgios K Glantzounis, Demosthenes E Ziogas, Ioannis Gizas, Dimitrios Schizas, Efstathios G Lykoudis, Evangelos Felekouras, Anastasios Machairas, Christos Katsios, Theodoros Liakakos, William C Cho, Dimitrios H Roukos
Hepatobiliary and pancreatic (HBP) cancers are associated with high cancer-related death rates. Surgery aiming for complete tumor resection (R0) remains the cornerstone of the treatment for HBP cancers. The current progress in the adjuvant treatment is quite slow, with gemcitabine chemotherapy available only for pancreatic ductal adenocarcinoma (PDA). In the advanced and metastatic setting, only two targeted drugs have been approved by the Food & Drug Administration (FDA), which are sorafenib for hepatocellular carcinoma and erlotinib for PDA...
January 18, 2017: International Journal of Molecular Sciences
https://www.readbyqxmd.com/read/28106594/big-data-and-nursing-implications-for-the-future
#8
Maxim Topaz, Lisiane Pruinelli
Big data is becoming increasingly more prevalent and it affects the way nurses learn, practice, conduct research and develop policy. The discipline of nursing needs to maximize the benefits of big data to advance the vision of promoting human health and wellbeing. However, current practicing nurses, educators and nurse scientists often lack the required skills and competencies necessary for meaningful use of big data. Some of the key skills for further development include the ability to mine narrative and structured data for new care or outcome patterns, effective data visualization techniques, and further integration of nursing sensitive data into artificial intelligence systems for better clinical decision support...
2017: Studies in Health Technology and Informatics
https://www.readbyqxmd.com/read/28106558/validation-of-suspected-somatic-single-nucleotide-variations-in-the-brain-of-alzheimer-s-disease-patients
#9
Alberto Gomez-Ramos, Angel J Picher, Esther García, Patricia Garrido, Felix Hernandez, Eduardo Soriano, Jesús Avila
Next-generation sequencing techniques and genome-wide association study analyses have provided a huge amount of data, thereby enabling the identification of DNA variations and mutations related to disease pathogenesis. New techniques and software tools have been developed to improve the accuracy and reliability of this identification. Most of these tools have been designed to discover and validate single nucleotide variants (SNVs). However, in addition to germ-line mutations, human tissues bear genomic mosaicism, which implies that somatic events are present only in low percentages of cells within a given tissue, thereby hindering the validation of these variations using standard genetic tools...
January 19, 2017: Journal of Alzheimer's Disease: JAD
https://www.readbyqxmd.com/read/28106467/follicular-lymphoma-a-b-cell-malignancy-addicted-to-epigenetic-mutations
#10
Koorosh Korfi, Sara Ali, James A Heward, Jude Fitzgibbon
While follicular lymphoma (FL) is exquisitely responsive to immuno-chemotherapy, many patients follow a relapsing remitting clinical course driven in part by a common precursor cell (CPC) population. Advances in next generation sequencing have provided valuable insights into the genetic landscape of FL and its clonal evolution in response to therapy, implicating perturbations of epigenetic regulators as a hallmark of the disease. Recurrent mutations of histone modifiers KMT2D, CREBBP, EP300, EZH2, ARIDIA, and linker histones are likely early events arising in the CPC pool, rendering epigenetic based therapies conceptually attractive for treatment of indolent and transformed FL...
January 20, 2017: Epigenetics: Official Journal of the DNA Methylation Society
https://www.readbyqxmd.com/read/28106460/fermi-large-area-telescope-as-a-galactic-supernovae-axionscope
#11
M Meyer, M Giannotti, A Mirizzi, J Conrad, M A Sánchez-Conde
In a Galactic core-collapse supernova (SN), axionlike particles (ALPs) could be emitted via the Primakoff process and eventually convert into γ rays in the magnetic field of the Milky Way. From a data-driven sensitivity estimate, we find that, for a SN exploding in our Galaxy, the Fermi Large Area Telescope (LAT) would be able to explore the photon-ALP coupling down to g_{aγ}≃2×10^{-13}  GeV^{-1} for an ALP mass m_{a}≲10^{-9}  eV. These values are out of reach of next generation laboratory experiments...
January 6, 2017: Physical Review Letters
https://www.readbyqxmd.com/read/28106224/polaronic-transport-in-iron-phosphate-glasses-containing-hfo2-and-ceo2
#12
Ana Šantić, Radha D Banhatti, Luka Pavić, Hüseyin Ertap, Mustafa Yüksek, Mevlüt Karabulut, Andrea Moguš-Milanković
The electrical and dielectric properties of three series of glasses, xHfO2-(40 - x)Fe2O3-60P2O5, 0 ≤ x ≤ 8 mol%, xCeO2-(40 - x)Fe2O3-60P2O5, 0 ≤ x ≤ 8 mol%, and xHfO2-(38 - x)Fe2O3-2B2O3-60P2O5 2 ≤ x ≤ 6 mol%, have been investigated by impedance spectroscopy over a wide frequency and temperature range. As expected, these glasses exhibit polaronic conductivity which strongly depends on the fraction of ferrous ions, Fe(2+)/Fetot. Following a detailed discussion on the DC conductivity, we use the MIGRATION concept to model their conductivity spectra...
January 20, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28106223/next-generation-of-network-medicine-interdisciplinary-signaling-approaches
#13
REVIEW
Tamas Korcsmaros, Maria Victoria Schneider, Giulio Superti-Furga
In the last decade, network approaches have transformed our understanding of biological systems. Network analyses and visualizations have allowed us to identify essential molecules and modules in biological systems, and improved our understanding of how changes in cellular processes can lead to complex diseases, such as cancer, infectious and neurodegenerative diseases. "Network medicine" involves unbiased large-scale network-based analyses of diverse data describing interactions between genes, diseases, phenotypes, drug targets, drug transport, drug side-effects, disease trajectories and more...
January 20, 2017: Integrative Biology: Quantitative Biosciences From Nano to Macro
https://www.readbyqxmd.com/read/28106163/synergistically-enhanced-selective-intracellular-uptake-of-anticancer-drug-carrier-comprising-folic-acid-conjugated-hydrogels-containing-magnetite-nanoparticles
#14
Haneul Kim, Ara Jo, Seulgi Baek, Daeun Lim, Soon-Yong Park, Soo Kyung Cho, Jin Woong Chung, Jinhwan Yoon
Targeted drug delivery has long been extensively researched since drug delivery and release at the diseased site with minimum dosage realizes the effective therapy without adverse side effects. In this work, to achieve enhanced intracellular uptake of anticancer drug carriers for efficient chemo-therapy, we have designed targeted multifunctional anticancer drug carrier hydrogels. Temperature-responsive poly(N-isopropylacrylamide) (PNIPAm) hydrogel core containing superparamagnetic magnetite nanoparticles (MNP) were prepared using precipitation polymerization, and further polymerized with amine-functionalized copolymer shell to facilitate the conjugation of targeting ligand...
January 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28106061/acoustic-optical-phonon-up-conversion-and-hot-phonon-bottleneck-in-lead-halide-perovskites
#15
Jianfeng Yang, Xiaoming Wen, Hongze Xia, Rui Sheng, Qingshan Ma, Jincheol Kim, Patrick Tapping, Takaaki Harada, Tak W Kee, Fuzhi Huang, Yi-Bing Cheng, Martin Green, Anita Ho-Baillie, Shujuan Huang, Santosh Shrestha, Robert Patterson, Gavin Conibeer
The hot-phonon bottleneck effect in lead-halide perovskites (APbX3) prolongs the cooling period of hot charge carriers, an effect that could be used in the next-generation photovoltaics devices. Using ultrafast optical characterization and first-principle calculations, four kinds of lead-halide perovskites (A=FA(+)/MA(+)/Cs(+), X=I(-)/Br(-)) are compared in this study to reveal the carrier-phonon dynamics within. Here we show a stronger phonon bottleneck effect in hybrid perovskites than in their inorganic counterparts...
January 20, 2017: Nature Communications
https://www.readbyqxmd.com/read/28106050/an-oxygen-sensitive-self-decision-making-engineered-car-t-cell
#16
Alexandre Juillerat, Alan Marechal, Jean Marie Filhol, Yannick Valogne, Julien Valton, Aymeric Duclert, Philippe Duchateau, Laurent Poirot
A key to the success of chimeric antigen receptor (CAR) T-cell based therapies greatly rely on the capacity to identify and target antigens with expression restrained to tumor cells. Here we present a strategy to generate CAR T-cells that are only effective locally (tumor tissue), potentially also increasing the choice of targetable antigens. By fusing an oxygen sensitive subdomain of HIF1α to a CAR scaffold, we generated CAR T-cells that are responsive to a hypoxic environment, a hallmark of certain tumors...
January 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28105974/baseline-practices-for-the-application-of-genomic-data-supporting-regulatory-food-safety
#17
Dominic Lambert, Arthur Pightling, Emma Griffiths, Gary Van Domselaar, Peter Evans, Sharon Berthelet, Duncan Craig, P Scott Chandry, Robert Stones, Fiona Brinkman, Alexandre Angers-Loustau, Joachim Kreysa, Weida Tong, Burton Blais
The application of new data streams generated from next-generation sequencing (NGS) has been demonstrated for food microbiology, pathogen identification, and illness outbreak detection. The establishment of best practices for data integrity, reproducibility, and traceability will ensure reliable, auditable, and transparent processes underlying food microbiology risk management decisions. We outline general principles to guide the use of NGS data in support of microbiological food safety. Regulatory authorities across intra- and international jurisdictions can leverage this effort to promote the reliability, consistency, and transparency of processes used in the derivation of genomic information for regulatory food safety purposes, and to facilitate interactions and the transfer of information in the interest of public health...
January 19, 2017: Journal of AOAC International
https://www.readbyqxmd.com/read/28105921/simba-a-web-tool-for-managing-bacterial-genome-assembly-generated-by-ion-pgm-sequencing-technology
#18
Diego C B Mariano, Felipe L Pereira, Edgar L Aguiar, Letícia C Oliveira, Leandro Benevides, Luís C Guimarães, Edson L Folador, Thiago J Sousa, Preetam Ghosh, Debmalya Barh, Henrique C P Figueiredo, Artur Silva, Rommel T J Ramos, Vasco A C Azevedo
BACKGROUND: The evolution of Next-Generation Sequencing (NGS) has considerably reduced the cost per sequenced-base, allowing a significant rise of sequencing projects, mainly in prokaryotes. However, the range of available NGS platforms requires different strategies and software to correctly assemble genomes. Different strategies are necessary to properly complete an assembly project, in addition to the installation or modification of various software. This requires users to have significant expertise in these software and command line scripting experience on Unix platforms, besides possessing the basic expertise on methodologies and techniques for genome assembly...
December 15, 2016: BMC Bioinformatics
https://www.readbyqxmd.com/read/28105850/next-generation-tau-models-in-alzheimer-s%C3%A2-disease-research-virus-based-gene-delivery-systems
#19
V Cubinková, B Valachová, V Brezovaková, R Szabó, I Zimová, Z Kostecká, S Jadhav
Alzheimer's disease (AD) the most common form of dementia is characterized by cognitive decline and progressive loss of neurons in the central nervous system. Despite huge scientific progress, there are only few animal models that recapitulate at least majority of the AD pathology and related symptomatology. Therefore, alternative methods to develop animal models for neurodegenerative diseases are constantly explored. Recently, recombinant adeno-associated viruses (AAVs) are widely used viral vectors in development of novel models for neurodegenerative diseases...
January 19, 2017: Acta Virologica
https://www.readbyqxmd.com/read/28105824/fabrication-method-for-laboratory-scale-high-performance-membrane-electrode-assemblies-for-fuel-cells
#20
Megan B Sassin, Yannick Garsany, Benjamin D Gould, Karen E Swider-Lyons
Custom catalyst-coated membranes (CCMs) and membrane electrode assemblies (MEAs) are necessary for the evaluation of advanced electrocatalysts, gas diffusion media (GDM), ionomers, polymer electrolyte membranes (PEMs), and electrode structures designed for use in next-generation fuel cells, electrolyzers, or flow batteries. This Feature provides a reliable and reproducible fabrication protocol for laboratory scale (10 cm(2)) fuel cells based on ultrasonic spray deposition of a standard Pt/carbon electrocatalyst directly onto a perfluorosulfonic acid PEM...
January 3, 2017: Analytical Chemistry
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