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https://www.readbyqxmd.com/read/28934490/number-of-inadvertent-rna-targets-for-morpholino-knockdown-in-danio-rerio-is-largely-underestimated-evidence-from-the-study-of-ser-arg-rich-splicing-factors
#1
Marine Joris, Marie Schloesser, Denis Baurain, Marc Hanikenne, Marc Muller, Patrick Motte
Although the involvement of Ser/Arg-rich (SR) proteins in RNA metabolism is well documented, their role in vertebrate development remains elusive. We, therefore, elected to take advantage of the zebrafish model organism to study the SR genes' functions using the splicing morpholino (sMO) microinjection and the programmable site-specific nucleases. Consistent with previous research, we revealed discrepancies between the mutant and morphant phenotypes and we show that these inconsistencies may result from a large number of unsuspected inadvertent morpholino RNA targets...
September 19, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28934144/the-recognition-of-calmodulin-to-the-target-sequence-of-calcineurin-a-novel-binding-mode
#2
Chia-Lin Chyan, Deli Irene, Sin-Mao Lin
Calcineurin (CaN) is a Ca(2+)/calmodulin-dependent Ser/Thr protein phosphatase, which plays essential roles in many cellular and developmental processes. CaN comprises two subunits, a catalytic subunit (CaN-A, 60 kDa) and a regulatory subunit (CaN-B, 19 kDa). CaN-A tightly binds to CaN-B in the presence of minimal levels of Ca(2+), but the enzyme is inactive until activated by CaM. Upon binding to CaM, CaN then undergoes a conformational rearrangement, the auto inhibitory domain is displaced and thus allows for full activity...
September 21, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28933493/novel-multi-analyte-responsive-ionic-supramolecular-gels-based-on-pyridinium-functionalized-naphthalimide
#3
Qi Lin, Peng-Peng Mao, Yan-Qing Fan, Pei-Pei Jia, Juan Liu, You-Ming Zhang, Hong Yao, Tai-Bao Wei
A novel ionic supramolecular gel (is-G) is synthesized using N-(pyridinium-4-yl)-naphthalimide (G1) and n-pentanoic acid. By rationally introducing competitive coordination into is-G, two ion coordinated ionic supramolecular gels is-IG and is-FeG (coordinated with I(-) and Fe(3+), respectively) are obtained. is-IG could fluorescently "turn-on" detect Hg(2+) and l-Arg with specific selectivity, whereas, is-FeG could accurately identify l-Ser via fluorescence in water. Moreover, ion or amino acid responsive films based on these ionic supramolecular gels are prepared...
September 21, 2017: Soft Matter
https://www.readbyqxmd.com/read/28933479/linking-classical-and-molecular-optomechanics-descriptions-of-sers
#4
Mikołaj K Schmidt, Ruben Esteban, Felix Benz, Jeremy J Baumberg, Javier Aizpurua
The surface-enhanced Raman scattering (SERS) of molecular species in plasmonic cavities can be described as an optomechanical process where plasmons constitute an optical cavity of reduced effective mode volume which effectively couples to the vibrations of the molecules. An optomechanical Hamiltonian can address the full quantum dynamics of the system, including the phonon population build-up, the vibrational pumping regime, and the Stokes-anti-Stokes correlations of the photons emitted. Here we describe in detail two different levels of approximation to the methodological solution of the optomechanical Hamiltonian of a generic SERS configuration, and compare the results of each model in light of recent experiments...
September 21, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28932840/monitoring-plasmon-coupling-and-sers-enhancement-through-in-situ-nanoparticle-spacing-modulation
#5
L Velleman, L Scarabelli, D Sikdar, A A Kornyshev, L M Liz-Marzán, J B Edel
Self-assembled nanoparticle (NP) arrays at liquid interfaces provide a unique optical response which has opened the door to new tuneable metamaterials for sensing and optical applications. NPs can spontaneously assemble at a liquid-liquid interface, forming an ordered, self-healing, low-defect 2D film. The close proximity of the NPs at the interface results in collective plasmonic modes with a spectral response dependent on the distance between the NPs and induces large field enhancements within the gaps. In this study, we assembled spherical and rod-shaped gold NPs with the aim of improving our understanding of NP assembly processes at liquid interfaces, working towards finely controlling their structure and producing tailored optical and enhanced Raman signals...
September 21, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28932831/smart-supramolecular-sensing-with-cucurbit-n-urils-probing-hydrogen-bonding-with-sers
#6
Bart de Nijs, Marlous Kamp, Istvan Szabó, Steven J Barrow, Felix Benz, Guanglu Wu, Cloudy Carnegie, Rohit Chikkaraddy, Wenting Wang, William M Deacon, Edina Rosta, Jeremy J Baumberg, Oren A Scherman
Rigid gap nano-aggregates of Au nanoparticles formed using cucurbit[n]uril (CB[n]) molecules are used to investigate the competitive binding of ethanol and methanol in an aqueous environment. We show it is possible to detect as little as 0.1% methanol in water and a ten times higher affinity to methanol over ethanol, making this a useful technology for quality control in alcohol production. We demonstrate strong interaction effects in the SERS peaks, which we demonstrate are likely from the hydrogen bonding of water complexes in the vicinity of the CB[n]s...
September 21, 2017: Faraday Discussions
https://www.readbyqxmd.com/read/28932772/diabetes-alters-vascular-mechanotransduction-data-pressure-induced-regulation-of-nf-kapa-b-p65-and-translational-associated-signaling-in-the-rat-inferior-vena-cava
#7
Kevin M Rice, Nandini D P K Manne, Ravikumar Arvapalli, Gautam K Ginjupalli, Eric R Blough
Diabetic patients have a high rate of vein graft failure due to attrition or vessel occlusion that cause recurrent ischemic events or vein graft. Veins grafted into a high-pressure arterial environment must undergo vascular remodeling to better handle the altered hemodynamics and intravascular increased pressure. Multiple cellular and molecular events are purported to be associated with vascular remodeling of veins. Understanding the effect diabetes has on vascular mechano-transductive response is critical to decreasing graft failure rates...
October 2017: Data in Brief
https://www.readbyqxmd.com/read/28932236/quantitative-evaluation-of-temporal-regularizers-in-compressed-sensing-dynamic-contrast-enhanced-mri-of-the-breast
#8
Dong Wang, Lori R Arlinghaus, Thomas E Yankeelov, Xiaoping Yang, David S Smith
PURPOSE: Dynamic contrast enhanced magnetic resonance imaging (DCE-MRI) is used in cancer imaging to probe tumor vascular properties. Compressed sensing (CS) theory makes it possible to recover MR images from randomly undersampled k-space data using nonlinear recovery schemes. The purpose of this paper is to quantitatively evaluate common temporal sparsity-promoting regularizers for CS DCE-MRI of the breast. METHODS: We considered five ubiquitous temporal regularizers on 4...
2017: International Journal of Biomedical Imaging
https://www.readbyqxmd.com/read/28931053/identification-and-molecular-characterization-of-a-metagenome-derived-l-lysine-decarboxylase-gene-from-subtropical-soil-microorganisms
#9
Jie Deng, Hua Gao, Zhen Gao, Huaxian Zhao, Ying Yang, Qiaofen Wu, Bo Wu, Chengjian Jiang
L-lysine decarboxylase (LDC, EC 4.1.1.18) is a key enzyme in the decarboxylation of L-lysine to 1,5-pentanediamine and efficiently contributes significance to biosynthetic capability. Metagenomic technology is a shortcut approach used to obtain new genes from uncultured microorganisms. In this study, a subtropical soil metagenomic library was constructed, and a putative LDC gene named ldc1E was isolated by function-based screening strategy through the indication of pH change by L-lysine decarboxylation. Amino acid sequence comparison and homology modeling indicated the close relation between Ldc1E and other putative LDCs...
2017: PloS One
https://www.readbyqxmd.com/read/28930445/thermo-responsive-and-active-functional-fiber-mats-for-cultured-cell-recovery
#10
Wilaiporn Graisuwan, Songchan Puthong, Hui Zhao, Suda Kiatkamjornwong, Patrick Theato, Voravee P Hoven
Thermo-responsive and active functional fiber mats were prepared from random copolymer of poly(pentafluorophenyl acrylate-co-N-isopropylacrylamide) (P(PFPA-co-NIPAM)), which was synthesized by a controlled radical polymerization process based on reversible addition-fragmentation chain transfer (RAFT). As reactive sites, pentafluorophenyl ester (PFP) groups were incorporated in the copolymer to allow for a multiple post-polymerization modification. UV-crosslinkable moieties were first introduced by partially reacting PFP groups in the copolymer with ortho-nitrobenzyl (ONB)-protected diamine...
September 20, 2017: Biomacromolecules
https://www.readbyqxmd.com/read/28929588/bioactive-compounds-of-shuang-huang-lian-prescription-and-an-insight-into-its-binding-mechanism-by-%C3%AE-2-adrenoceptor-chromatography-coupled-with-site-directed-molecular-docking
#11
Jing Wang, Fengwu Li, Kaizhu Zeng, Qian Li, Xinfeng Zhao, Xiaohui Zheng
Owing to the promising clinical efficacy and relatively simple composition, Shuang-Huang-Lian prescription is widely prescribed for the treatment of acute upper respiratory tract infection and acute bronchitis in practice. This necessitates the understanding of the bioactive compounds of the prescription and their binding mechanism to β2-adrenoceptor, which mediates the aforementioned ailments. In this work, a column containing immobilized β2-adrenoceptor was prepared using a diazonium salt reaction. The bioactive compound collected from the β2-adrenoceptor column was identified as chlorogenic acid by using high-performance liquid chromatography coupled with ion trap mass spectrometry...
September 20, 2017: Journal of Separation Science
https://www.readbyqxmd.com/read/28929336/melatonin-alters-amino-acid-metabolism-and-inflammatory-responses-in-colitis-mice
#12
Gang Liu, Qian Jiang, Shuai Chen, Jun Fang, Wenkai Ren, Jie Yin, Kang Yao, Yulong Yin
Inflammatory bowel disease is a chronic inflammatory dysfunction of the gastrointestinal tract. This study explored the hypothesis that melatonin has beneficial functions in the mouse model of colitis induced by dextran sodium sulfate (DSS), with a specific focus on the expression of intestinal inflammatory cytokines and the serum levels of amino acids. The results revealed that mice with melatonin supplementation had a reduction in weight loss and disease index induced by DSS treatment. Melatonin stifled the expression of colonic IL-17 in mice with DSS-induced colitis...
September 19, 2017: Amino Acids
https://www.readbyqxmd.com/read/28928725/the-neurospora-crassa-pp2a-regulatory-subunits-rgb1-and-b56-are-required-for-proper-growth-and-development-and-interact-with-the-ndr-kinase-cot1
#13
Hila Shomin-Levi, Oded Yarden
COT1 is the founding member of the highly conserved nuclear Dbf2-related (NDR) Ser/Thr kinase family and plays a role in the regulation of polar growth and development in Neurospora crassa and other fungi. Changes in COT1 phosphorylation state have been shown to affect hyphal elongation, branching, and conidiation. The function of NDR protein kinases has been shown to be regulated by type 2A protein phosphatases (PP2As). PP2As are heterotrimers comprised of a catalytic and scaffolding protein along with an interchangeable regulatory subunit involved in determining substrate specificity...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28928328/evolution-of-minimally-invasive-distal-pancreatectomies-at-a-single-institution
#14
Brian K P Goh, Ser-Yee Lee, Juinn-Huar Kam, Hui Ling Soh, Peng-Chung Cheow, Pierce K H Chow, London L P J Ooi, Alexander Y F Chung, Chung-Yip Chan
INTRODUCTION: This study aims to study the changing trends and outcomes associated with the adoption of minimally invasive distal pancreatectomy (MIDP) at a single centre. MATERIALS AND METHODS: Retrospective review of sixty consecutive patients who underwent MIDP from September 2006 to November 2016 at a single institution. To study the evolution of MIDP, the study population was divided into three groups consisting of twenty patients (Group I, Group II and Group III)...
September 20, 2017: Journal of Minimal Access Surgery
https://www.readbyqxmd.com/read/28927873/genome-sequence-of-streptomyces-mangrovisoli-musc-149-t-isolated-from-intertidal-sediments
#15
Hooi-Leng Ser, Wen-Si Tan, Nurul-Syakima Ab Mutalib, Wai-Fong Yin, Kok-Gan Chan, Bey-Hing Goh, Learn-Han Lee
As the largest genus in Actinobacteria family, Streptomyces species have the ability to synthesize numerous compounds of diverse structures with bioactivities. Streptomyces mangrovisoli MUSC 149(T) was previously isolated as a novel streptomycete from mangrove forest in east coast of Peninsular Malaysia. The high quality draft genome of MUSC 149(T) comprises 9,165,825bp with G+C content of 72.5%. Through bioinformatics analysis, 21 gene clusters identified in the genome were associated with the production of bioactive secondary metabolites...
September 6, 2017: Brazilian Journal of Microbiology: [publication of the Brazilian Society for Microbiology]
https://www.readbyqxmd.com/read/28927755/protein-kinase-ck2-inhibition-suppresses-neointima-formation-via-a-proline-rich-homeodomain-dependent-mechanism
#16
K S Wadey, B A Brown, G B Sala-Newby, P-S Jayaraman, K Gaston, S J George
Neointimal hyperplasia is a product of VSMC replication and consequent accumulation within the blood vessel wall. In this study, we determined whether inhibition of protein kinase CK2 and the resultant stabilisation of proline-rich homeodomain (PRH) could suppress VSMC proliferation. Both silencing and pharmacological inhibition of CK2 with K66 antagonised replication of isolated VSMCs. SiRNA-induced knockdown as well as ectopic overexpression of proline-rich homeodomain indicated that PRH disrupts cell cycle progression...
September 16, 2017: Vascular Pharmacology
https://www.readbyqxmd.com/read/28927538/advances-in-ligase-chain-reaction-and-ligation-based-amplifications-for-genotyping-assays-detection-and-applications
#17
REVIEW
Abdullah A Gibriel, Ola Adel
Genetic variants have been reported to cause several genetic diseases. Various genotyping assays have been developed for diagnostic and screening purposes but with certain limitations in sensitivity, specificity, cost effectiveness and/or time savings. Since the discovery of ligase chain reaction (LCR) in the late nineties, it became one of the most favored platforms for detecting these variants and also for genotyping low abundant contaminants. Recent and powerful modifications with the integration of various detection strategies such as electrochemical and magnetic biosensors, nanoparticles (NPs), quantum dots, quartz crystal and leaky surface acoustic surface biosensors, DNAzyme, rolling circle amplification (RCA), strand displacement amplification (SDA), surface enhanced raman scattering (SERS), chemiluminescence and fluorescence resonance energy transfer have been introduced to both LCR and ligation based amplifications to enable high-throughput and inexpensive multiplex genotyping with improved robustness, simplicity, sensitivity and specificity...
July 2017: Mutation Research
https://www.readbyqxmd.com/read/28926701/forensic-sampling-and-analysis-from-a-single-substrate-for-surface-enhanced-raman-spectroscopy-followed-by-paper-spray-mass-spectrometry
#18
Patrick W Fedick, Brandon J Bills, Nicholas E Manicke, R Graham Cooks
Sample preparation is the most common bottle-neck in the analysis and processing of forensic evidence. Time-consuming steps in many forensic tests involve complex separations such as liquid and gas chromatography or various types of extraction techniques, typically coupled with mass spectrometry (e.g. LC-MS). Ambient ionization ameliorates these slow steps by reducing or even eliminating sample preparation. While some ambient ionization techniques have been adopted by the forensic community, there is significant resistance to discarding chromatography as most forensic analyses require both an identification and a confirmation technique...
September 19, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28926586/sox14-activates-the-p53-signaling-pathway-and-induces-apoptosis-in-a-cervical-carcinoma-cell-line
#19
Danijela Stanisavljevic, Isidora Petrovic, Vladanka Vukovic, Marija Schwirtlich, Marija Gredic, Milena Stevanovic, Jelena Popovic
SOX14 is a member of the SOX family of transcription factors mainly involved in the regulation of neural development. Recently, it became evident that SOX14 is one of four hypermethylated genes in cervical carcinoma, considered as a tumor suppressor candidate in this type of malignancy. In this paper we elucidated the role of SOX14 in the regulation of malignant properties of cervical carcinoma cells in vitro. Functional analysis performed in HeLa cells revealed that SOX14 overexpression decreased viability and promoted apoptosis through altering the expression of apoptosis related genes...
2017: PloS One
https://www.readbyqxmd.com/read/28926064/quantitative-sers-by-hot-spot-normalization-surface-enhanced-rayleigh-band-intensity-as-an-alternative-evaluation-parameter-for-sers-substrate-performance
#20
Haoran Wei, Alexis McCarthy, Junyeob Song, Wei Zhou, Peter J Vikesland
The performance of surface-enhanced Raman spectroscopy (SERS) substrates is typically evaluated by calculating an enhancement factor (EF). However, it is challenging to accurately calculate EF values since the calculation often requires the use of model analytes and requires assumptions about the number of analyte molecules within the laser excitation volume. Furthermore, the measured EF values are target analyte dependent and thus it is challenging to compare substrates with EF values obtained using different analytes...
September 19, 2017: Faraday Discussions
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