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https://www.readbyqxmd.com/read/27926847/probing-lipid-bilayers-under-ionic-imbalance
#1
Jiaqi Lin, Alfredo Alexander-Katz
Biological membranes are normally under a resting transmembrane potential (TMP), which originates from the ionic imbalance between extracellular fluids and cytosols, and serves as electric power storage for cells. In cell electroporation, the ionic imbalance builds up a high TMP, resulting in the poration of cell membranes. However, the relationship between ionic imbalance and TMP is not clearly understood, and little is known about the effect of ionic imbalance on the structure and dynamics of biological membranes...
December 6, 2016: Biophysical Journal
https://www.readbyqxmd.com/read/27926845/membrane-bound-alpha-synuclein-clusters-induce-impaired-lipid-diffusion-and-increased-lipid-packing
#2
Aditya Iyer, Nathalie Schilderink, Mireille M A E Claessens, Vinod Subramaniam
The aggregation of membrane-bound α-synuclein (αS) into oligomers and/or amyloid fibrils has been suggested to cause membrane damage in in vitro model phospholipid membrane systems and in vivo. In this study, we investigate how αS interactions that precede the formation of well-defined aggregates influence physical membrane properties. Using three truncated variants of αS with different aggregation propensities and comparable phospholipid membrane binding affinities we show, using fluorescence recovery after photobleaching (FRAP) and fluorescence anisotropy measurements, that formation of αS clusters on supported lipid bilayers (SLBs) impairs lateral lipid diffusion and increases lipid packing beneath the αS clusters...
December 6, 2016: Biophysical Journal
https://www.readbyqxmd.com/read/27925695/integrated-biomarker-profiling-of-smokers-with-periodontitis
#3
Radhakrishnan Nagarajan, Mohanad Al-Sabbagh, Dolph Dawson, Jeffrey Ebersole
: In the context of precision medicine, understanding patient-specific variation is an important step in developing targeted and patient-tailored treatment regimens for periodontitis. While several studies have successfully demonstrated the usefulness of molecular expression profiling in conjunction with single classifier systems in discerning distinct disease groups, the majority of these studies do not provide sufficient insights into potential variations within the disease groups. AIM: The goal of the present study is to discern biological response profiles of periodontitis and non-periodontitis smoking subjects using an informed panel of biomarkers across multiple scales (salivary, oral microbiome, pathogens and other markers)...
December 7, 2016: Journal of Clinical Periodontology
https://www.readbyqxmd.com/read/27925398/cell-based-biohybrid-drug-delivery-systems-the-best-of-the-synthetic-and-natural-worlds
#4
Samagya Banskota, Parisa Yousefpour, Ashutosh Chilkoti
The goal of drug delivery is to deliver therapeutics to the site of disease while reducing unwanted side effects. In recent years, a diverse variety of synthetic nano and microparticles have been developed as drug delivery systems. The success of these systems for drug delivery lies in their ability to overcome biological barriers such as the blood-brain barrier, to evade immune clearance and avoid nonspecific biodistribution. This Review provides an overview of recent advances in the design of biohybrid drug delivery systems, which combine cells with synthetic systems to overcome some of these biological hurdles...
December 7, 2016: Macromolecular Bioscience
https://www.readbyqxmd.com/read/27925225/preclinical-study-of-anticoagulation-regimens-in-sheep-after-implantation-of-ch-vad-blood-pump
#5
Chuangye Xu, Guanghui Wu, Xiujian Liu, Yuna He, Xiaotong Hou, Haiyang Li, Chen Chen, Peng Yang, Changyan Lin
Effective anticoagulation regimens are needed to reduce risks of thrombosis and bleeding in animal models of ventricular assist device to verify its hemocompatibility, biologic safety and reliability. This study is to develop a validated anticoagulation procedure for a sheep model to test the newly developed CH-VAD. CH-VAD models were established in six healthy sheep by constructing blood bypass of left ventricle → ventricular assist device → descending aorta. Heparin infusion was used during operation and in the prior 4 days to maintain activated clotting time 1...
December 7, 2016: Artificial Organs
https://www.readbyqxmd.com/read/27925010/the-effects-of-a-simple-method-for-cryopreservation-and-thawing-procedures-on-cord-blood-derived-dc-based-esophageal-carcinoma-vaccine
#6
J Yu, L Xie, S Chen, J Zhang, G Guo, B Chen
BACKGROUND: Producing sufficient numbers of DCs at one time point and subsequently cryopreserving the generated DCs in ready-for-use aliquots for clinical application is useful in cancer treatment. OBJECTIVE: To study the effects of a simplified cryopreservation method and thawing procedures acting on the biological characteristics and specific cytotoxic activity of cord blood derived DC-based esophageal carcinoma vaccine. MATERIALS AND METHODS: CD34+ hematopoietic stem cells were isolated from cord blood using CD34+ Progenitor Cell Isolation Kit by magnetic cell sorting system (MACS)...
July 2016: Cryo Letters
https://www.readbyqxmd.com/read/27924940/the-metabolic-flux-regulation-of-klebsiella-pneumoniae-based-on-quorum-sensing-system
#7
Shujing Sun, Haiyang Zhang, Shuyi Lu, Chunfen Lai, Huijun Liu, Hu Zhu
Quorum-sensing (QS) systems exist universally in bacteria to regulate multiple biological functions. Klebsiella pneumoniae, an industrially important bacterium that produces bio-based chemicals such as 2,3-butanediol and acetoin, can secrete a furanosyl borate diester (AI-2) as the signalling molecule mediating a QS system, which plays a key regulatory role in the biosynthesis of secondary metabolites. In this study, the molecular regulation and metabolic functions of a QS system in K. pneumoniae were investigated...
December 7, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27924920/online-flow-cytometry-reveals-microbial-dynamics-influenced-by-concurrent-natural-and-operational-events-in-groundwater-used-for-drinking-water-treatment
#8
Michael D Besmer, Jannis Epting, Rebecca M Page, Jürg A Sigrist, Peter Huggenberger, Frederik Hammes
Detailed measurements of physical, chemical and biological dynamics in groundwater are key to understanding the important processes in place and their influence on water quality - particularly when used for drinking water. Measuring temporal bacterial dynamics at high frequency is challenging due to the limitations in automation of sampling and detection of the conventional, cultivation-based microbial methods. In this study, fully automated online flow cytometry was applied in a groundwater system for the first time in order to monitor microbial dynamics in a groundwater extraction well...
December 7, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27924588/antioxidant-micronutrients-and-oxidative-stress-biomarkers
#9
Iain L C Chapple, Helen R Griffiths, Mike R Milward, Martin R Ling, Melissa M Grant
Chronic inflammatory diseases are the major causes of mortality in humans and recent research has improved our understanding of the major impact of life-style factors upon inflammatory diseases and conditions. One of the most influential of these is nutrition, which may drive both pro-inflammatory as well as anti-inflammatory cascades at molecular and cellular levels. There are a variety of model systems that may be employed to investigate the impact of micronutrients and macronutrients upon inflammatory pathways, many of which operate through oxidative stress, either at the level of controlling the redox state of the cell and downstream redox-regulated gene transcription factors, and other acting as free radical generating or scavenging agents...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924587/qualitative-and-quantitative-proteome-analysis-of-oral-fluids-in-health-and-periodontal-disease-by-mass-spectrometry
#10
Erdjan Salih
The significance of protein identification and characterization by classical protein chemistry approaches is clearly highlighted by our detailed understanding of the biological systems assembled over a time period of almost a century. The advent of state-of-the-art mass spectrometry (MS) with sensitivity, speed, and global protein analysis capacity without individual protein purification has transformed the classical protein chemistry with premise to accelerate discovery. These combined with the ability of the oral fluids such as whole saliva (WS) and gingival crevicular fluid (GCF) to reflect both systemic and locally derived proteins have generated significant interest to characterize these fluids more extensively by MS technology...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924578/discovering-functional-erk-substrates-regulating-caenorhabditis-elegans-germline-development
#11
Jessica Jie Chen, Swathi Arur
The Rat Sarcoma (RAS) GTPAse-mediated extracellular signal-regulated kinase (ERK) pathway regulates multiple biological processes across metazoans. In particular during Caenorhabditis elegans oogenesis, ERK signaling has been shown to regulate over seven distinct biological processes in a temporal and sequential manner. To fully elucidate how ERK signaling cascade orchestrates these different biological processes in vivo, identification of the direct functional substrates of the pathway is critical. This chapter describes the methods that were used to identify ERK substrates in a global manner and study their functions in the germline...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924562/single-step-affinity-purification-of-erk-signaling-complexes-using-the-streptavidin-binding-peptide-sbp-tag
#12
Liu Yang, Alexey Veraksa
Elucidation of biological functions of signaling proteins is facilitated by studying their protein-protein interaction networks. Affinity purification combined with mass spectrometry (AP-MS) has become a favorite method to study protein complexes. Here we describe a procedure for single-step purification of ERK (Rolled) and associated proteins from Drosophila cultured cells. The use of the streptavidin-binding peptide (SBP) tag allows for a highly efficient isolation of native ERK signaling complexes, which are suitable for subsequent analysis by mass spectrometry...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924559/isolation-and-characterization-of-intrinsically-active-mek-independent-mutants-of-mpk1-erk
#13
Tal Goshen-Lago, Dganit Melamed, Arie Admon, David Engelberg
The extracellular-regulated kinase (Erk) pathway is a major determinant in the control of diverse cellular processes, such as proliferation, differentiation, survival, and motility. The pathway executes its effects through kinases of the Erk family. Erks are not only critical for a variety of physiological processes, but are also associated with neurodegenerative diseases, cardiovascular diseases, diabetes and a large number of human cancers. However, the exact role of each Erk molecule in these biological and pathological processes is not fully determined...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27924468/whether-a-novel-drug-delivery-system-can-overcome-the-problem-of-biofilms-in-respiratory-diseases
#14
REVIEW
Kamal Dua, Shakti D Shukla, Rakesh K Tekade, Philip M Hansbro
Biofilm comprises a community of microorganisms which form on medical devices and can lead to various threatening infections. It is a major concern in various respiratory diseases like cystic fibrosis, chronic obstructive pulmonary disease, etc. The treatment strategies for such infections are difficult due to the resistance of the microflora existing in the biofilms against various antimicrobial agents, thus posing threats to the patient population. The present era witnesses the beginning of research to understand the biofilm physiology and the associated microfloral diversity by applying -omics approaches...
December 6, 2016: Drug Delivery and Translational Research
https://www.readbyqxmd.com/read/27924315/control-of-selective-ion-transfer-across-liquid-liquid-interfaces-a-rectifying-heterojunction-based-on-immiscible-electrolytes
#15
Guillermo Iván Guerrero-García, Francisco J Solis, Kalyan Raidongia, Andrew Robert Koltonow, Jiaxing Huang, Mónica Olvera de la Cruz
The current rectification displayed by solid-state p-n semiconductor diodes relies on the abundance of electrons and holes near the interface between the p-n junction. In analogy to this electronic device, we propose here the construction of a purely ionic liquid-state electric rectifying heterojunction displaying an excess of monovalent cations and anions near the interface between two immiscible solvents with different dielectric properties. This system does not need any physical membrane or material barrier to show preferential ion transfer but relies on the ionic solvation energy between the two immiscible solvents...
November 23, 2016: ACS Central Science
https://www.readbyqxmd.com/read/27924046/new-data-and-features-for-advanced-data-mining-in-manteia
#16
Olivier Tassy
Manteia is an integrative database available online at http://manteia.igbmc.fr which provides a large array of OMICs data related to the development of the mouse, chicken, zebrafish and human. The system is designed to use different types of data together in order to perform advanced datamining, test hypotheses or provide candidate genes involved in biological processes or responsible for human diseases. In this new version of the database, Manteia has been enhanced with new expression data originating from microarray and next generation sequencing experiments...
October 24, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27924016/bio-tds-bioscience-query-tool-discovery-system
#17
Etienne Z Gnimpieba, Menno S VanDiermen, Shayla M Gustafson, Bill Conn, Carol M Lushbough
Bioinformatics and computational biology play a critical role in bioscience and biomedical research. As researchers design their experimental projects, one major challenge is to find the most relevant bioinformatics toolkits that will lead to new knowledge discovery from their data. The Bio-TDS (Bioscience Query Tool Discovery Systems, http://biotds.org/) has been developed to assist researchers in retrieving the most applicable analytic tools by allowing them to formulate their questions as free text. The Bio-TDS is a flexible retrieval system that affords users from multiple bioscience domains (e...
October 18, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27924014/the-string-database-in-2017-quality-controlled-protein-protein-association-networks-made-broadly-accessible
#18
Damian Szklarczyk, John H Morris, Helen Cook, Michael Kuhn, Stefan Wyder, Milan Simonovic, Alberto Santos, Nadezhda T Doncheva, Alexander Roth, Peer Bork, Lars J Jensen, Christian von Mering
A system-wide understanding of cellular function requires knowledge of all functional interactions between the expressed proteins. The STRING database aims to collect and integrate this information, by consolidating known and predicted protein-protein association data for a large number of organisms. The associations in STRING include direct (physical) interactions, as well as indirect (functional) interactions, as long as both are specific and biologically meaningful. Apart from collecting and reassessing available experimental data on protein-protein interactions, and importing known pathways and protein complexes from curated databases, interaction predictions are derived from the following sources: (i) systematic co-expression analysis, (ii) detection of shared selective signals across genomes, (iii) automated text-mining of the scientific literature and (iv) computational transfer of interaction knowledge between organisms based on gene orthology...
October 18, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27924010/dna-data-bank-of-japan
#19
Jun Mashima, Yuichi Kodama, Takatomo Fujisawa, Toshiaki Katayama, Yoshihiro Okuda, Eli Kaminuma, Osamu Ogasawara, Kousaku Okubo, Yasukazu Nakamura, Toshihisa Takagi
The DNA Data Bank of Japan (DDBJ) (http://www.ddbj.nig.ac.jp) has been providing public data services for thirty years (since 1987). We are collecting nucleotide sequence data from researchers as a member of the International Nucleotide Sequence Database Collaboration (INSDC, http://www.insdc.org), in collaboration with the US National Center for Biotechnology Information (NCBI) and European Bioinformatics Institute (EBI). The DDBJ Center also services Japanese Genotype-phenotype Archive (JGA), with the National Bioscience Database Center to collect human-subjected data from Japanese researchers...
October 24, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27923921/high-resolution-ph-imaging-of-living-bacterial-cells-to-detect-local-ph-differences
#20
Yusuke V Morimoto, Nobunori Kami-Ike, Tomoko Miyata, Akihiro Kawamoto, Takayuki Kato, Keiichi Namba, Tohru Minamino
: Protons are utilized for various biological activities such as energy transduction and cell signaling. For construction of the bacterial flagellum, a type III export apparatus utilizes ATP and proton motive force to drive flagellar protein export, but the energy transduction mechanism remains unclear. Here, we have developed a high-resolution pH imaging system to measure local pH differences within living Salmonella enterica cells, especially in close proximity to the cytoplasmic membrane and the export apparatus...
December 6, 2016: MBio
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