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Synthetic biology

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https://www.readbyqxmd.com/read/29786664/enable-2017-the-first-european-phd-and-post-doc-symposium-session-3-in-vitro-to-in-vivo-modeling-life-in-3d
#1
Gianmarco Di Mauro, Ambra Dondi, Giovanni Giangreco, Alexander Hogrebe, Elja Louer, Elisa Magistrati, Meeli Mullari, Gemma Turon, Wouter Verdurmen, Helena Xicoy Cortada, Sanja Zivanovic
The EUROPEAN ACADEMY FOR BIOMEDICAL SCIENCE (ENABLE) is an initiative funded by the European Union Horizon 2020 program involving four renowned European research institutes (Institute for Research in Biomedicine-IRB Barcelona, Spain; Radboud Institute for Molecular Life Sciences-RIMLS, the Netherlands; Novo Nordisk Foundation Center for Protein Research-NNF CPR, Denmark; European School of Molecular Medicine-SEMM, Italy) and an innovative science communication agency (Scienseed). With the aim to promote biomedical science of excellence in Europe, ENABLE organizes an annual three-day international event...
May 22, 2018: Journal of Personalized Medicine
https://www.readbyqxmd.com/read/29786558/new-substrates-for-stem-cell-control
#2
REVIEW
Sara Schmidt, Annamaria Lilienkampf, Mark Bradley
The capacity to culture stem cells in a controllable, robust and scalable manner is necessary in order to develop successful strategies for the generation of cellular and tissue platforms for drug screening, toxicity testing, tissue engineering and regenerative medicine. Creating substrates that support the expansion, maintenance or directional differentiation of stem cells would greatly aid these efforts. Optimally, the substrates used should be chemically defined and synthetically scalable, allowing growth under defined, serum-free culture conditions...
July 5, 2018: Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences
https://www.readbyqxmd.com/read/29786424/tuning-gene-activity-by-inducible-and-targeted-regulation-of-gene-expression-in-minimal-bacterial-cells
#3
Ana M Mariscal, Shigeyuki Kakizawa, Jonathan Y Hsu, Kazuki Tanaka, Luis González-González, Alicia Broto, Enrique Querol, Maria Lluch-Senar, Carlos Piñero-Lambea, Lijie Sun, Philip D Weyman, Kim S Wise, Chuck Merryman, Gavin Tse, Adam J Moore, Clyde A Hutchison, Hamilton O Smith, Masaru Tomita, J Craig Venter, John I Glass, Jaume Piñol, Yo Suzuki
Functional genomics studies in minimal mycoplasma cells enable unobstructed access to some of the most fundamental processes in biology. Conventional transposon bombardment and gene knockout approaches often fail to reveal functions of genes that are essential for viability, where lethality precludes phenotypic characterization. Conditional inactivation of genes is effective for characterizing functions central to cell growth and division, but tools are limited for this purpose in mycoplasmas. Here we demonstrate systems for inducible repression of gene expression based on clustered regularly interspaced short palindromic repeats-mediated interference (CRISPRi) in Mycoplasma pneumoniae and synthetic Mycoplasma mycoides, two organisms with reduced genomes actively used in systems biology studies...
May 22, 2018: ACS Synthetic Biology
https://www.readbyqxmd.com/read/29784963/single-entity-resolution-valving-of-nanoscopic-species-in-liquids
#4
Patric Eberle, Christian Höller, Philipp Müller, Maarit Suomalainen, Urs F Greber, Hadi Eghlidi, Dimos Poulikakos
Investigating biological and synthetic nanoscopic species in liquids, at the ultimate resolution of single entity, is important in diverse fields1-5 . Progress has been made6-10 , but significant barriers need to be overcome such as the need for intense fields, the lack of versatility in operating conditions and the limited functionality in solutions of high ionic strength for biological applications. Here, we demonstrate switchable electrokinetic nanovalving able to confine and guide single nano-objects, including macromolecules, with sizes down to around 10 nanometres, in a lab-on-chip environment...
May 21, 2018: Nature Nanotechnology
https://www.readbyqxmd.com/read/29784937/an-oil-free-picodrop-bioassay-platform-for-synthetic-biology
#5
Christian A Siltanen, Russell H Cole, Sean Poust, Lawrence Chao, Jabus Tyerman, Benjamin Kaufmann-Malaga, Jeff Ubersax, Zev J Gartner, Adam R Abate
Droplet microfluidics enables massively-parallel analysis of single cells, biomolecules, and chemicals, making it valuable for high-throughput screens. However, many hydrophobic analytes are soluble in carrier oils, preventing their quantitative analysis with the method. We apply Printed Droplet Microfluidics to construct defined reactions with chemicals and cells incubated under air on an open array. The method interfaces with most bioanalytical tools and retains hydrophobic compounds in compartmentalized reactors, allowing their quantitation...
May 21, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29784272/design-and-synthesis-of-new-antitumor-agents-with-the-1-7-epoxycyclononane-framework-study-of-their-anticancer-action-mechanism-by-a-model-compound
#6
Ángel M Montaña, Julia Lorenzo, Stefano Ponzano, Maria-Filomena Sanasi
This article describes the design, synthesis and biological evaluation of a new family of antitumor agents having the 1,7-epoxycyclononane framework. We have developed a versatile synthetic methodology that allows the preparation of a chemical library with structural diversity and in good yield. The synthetic methodology has been scaled up to the multigram level and can be developed in an enantioselective fashion. The study in vitro of a model compound, in front of the cancer cell lines HL-60 and MCF-7, showed a growth inhibitory effect better than that of cisplatin...
May 18, 2018: Bioorganic & Medicinal Chemistry
https://www.readbyqxmd.com/read/29782151/a-computational-workflow-for-the-automated-generation-of-models-of-genetic-designs
#7
Göksel Mısırlı, Tramy Nguyen, James Alastair McLaughlin, Prashant Vaidyanathan, Timothy Jones, Douglas Densmore, Chris J Myers, Anil Wipat
Computational models are essential to engineer predictable biological systems and to scale up this process for complex systems. Computational modelling often requires expert knowledge and data to build models. Clearly, manual creation of models is not scalable for large designs. Despite several automated model construction approaches, computational methodologies to bridge knowledge in design repositories and the process of creating computational models has still not been established. This paper describes a workflow for automatic generation of computational models of genetic circuits from data stored in design repositories using existing standards...
May 21, 2018: ACS Synthetic Biology
https://www.readbyqxmd.com/read/29782016/in-vivo-gene-transfer-to-the-rabbit-common-carotid-artery-endothelium
#8
Bradley K Wacker, Lianxiang Bi, David A Dichek
The goal of this method is to introduce a transgene into the endothelium of isolated segments of both rabbit common carotid arteries. The method achieves focal endothelial-selective transgenesis, thereby allowing an investigator to determine the biological roles of endothelial-expressed transgenes and to quantify the in vivo transcriptional activity of DNA sequences in large artery endothelial cells. The method uses surgical isolation of rabbit common carotid arteries and an arteriotomy to deliver a transgene-expressing viral vector into the arterial lumen...
May 6, 2018: Journal of Visualized Experiments: JoVE
https://www.readbyqxmd.com/read/29781458/chemoprevention-an-overview-of-pharmacologic-agents-and-nursing-considerations
#9
Jean E Boucher
Cancer chemoprevention involves the use of synthetic and biologic agents as targeted therapies for disease prevention, reduction, or suppression. Mechanisms of blocking or suppressing cancer-related pathways include processes of carcinogenesis, chronic inflammatory responses, DNA modulation, and signal transduction. This column provides an update on pharmacologic agents and nursing considerations for chemoprevention.
June 1, 2018: Clinical Journal of Oncology Nursing
https://www.readbyqxmd.com/read/29781274/the-synthesis-of-branched-trehalose-glycolipids-and-their-mincle-agonist-activity
#10
Jessie H Bird, Ashna A Khan, Naoya Nishimura, Sho Yamasaki, Mattie S M Timmer, Bridget L Stocker
The macrophage inducible C-type lectin (Mincle) is a pattern recognition receptor that recognises trehalose dimycolate (TDM), and trehalose dibehenate (TDB) and related trehalose diesters, and thus represents a promising target for the development of vaccine adjuvants based on the trehalose glycolipid scaffold. To this end, we report on the synthesis of a series of long-chain α-branched, β-modified trehalose monoesters and diesters to explore how glycolipid structure affects signalling through Mincle. Key steps in our synthetic strategy include a Fráter-Seebach α-alkylation to install the C20 aliphatic lipid on a malic acid derivative, and the formation of a β, γ-epoxide as an intermediate from which modifications to the β-position of the lipid can be made...
May 21, 2018: Journal of Organic Chemistry
https://www.readbyqxmd.com/read/29781062/antioxidants-in-the-fight-against-atherosclerosis-is-this-a-dead-end
#11
REVIEW
Paola Toledo-Ibelles, Jaime Mas-Oliva
PURPOSE OF REVIEW: The purpose of this review is to focus on the outcome of recent antioxidant interventions using synthetic and naturally occurring molecules established as adjuvant strategies to lipid-lowering or anti-inflammatory therapies designed to reduce the risk of cardiovascular disease. RECENT FINDINGS: To date, accumulated evidence regarding oxidation as a pro-atherogenic factor indicates that redox biochemical events involved in atherogenesis are indeed a very attractive target for the management of cardiovascular disease in the clinic...
May 21, 2018: Current Atherosclerosis Reports
https://www.readbyqxmd.com/read/29780094/-the-treatment-of-patients-with-elderly-onset-rheumatoid-arthritis-at-niigata-rheumatic-center
#12
Chinatsu Takai, Daisuke Kobayashi, Satoshi Ito, Akira Murasawa, Yoko Wada, Ichiei Narita, Kiyoshi Nakazono
AIM: To investigate the clinical course of patients with elderly-onset rheumatoid arthritis (RA). METHODS: We compared the characteristics, and clinical course of 55 patients who developed RA at over 80 years of age (elderly-onset [EO] group) with 119 patients who developed RA at 40-59 years of age (non-elderly onset [non-EO] group). We also investigated the characteristics and clinical course of 19 patients who developed RA at over 80 and who received biological disease-modifying anti-rheumatic drugs (bDMARDs)...
2018: Nihon Ronen Igakkai Zasshi. Japanese Journal of Geriatrics
https://www.readbyqxmd.com/read/29779667/terminal-alkyne-biosynthesis-in-marine-microbes
#13
Xuejun Zhu, Wenjun Zhang
The terminal alkyne is a readily derivatized functionality valued for its diverse applications in material synthesis, pharmaceutical science, and chemical biology. The synthetic biology routes to terminal alkynes are highly desired and yet underexplored. Some marine natural products contain a terminal alkyne functionality, and the discovery of the biosynthetic gene clusters for jamaicamide B and carmabin A marked the beginning of a new era in the understanding and engineering of terminal alkyne biosynthesis...
2018: Methods in Enzymology
https://www.readbyqxmd.com/read/29779659/preparation-assay-and-application-of-chlorinase-sall-for-the-chemoenzymatic-synthesis-of-s-adenosyl-l-methionine-and-analogs
#14
Tony D Davis, Sylvia Kunakom, Michael D Burkart, Alessandra S Eustaquio
S-adenosyl-l-methionine (SAM) is universal in biology, serving as the second most common cofactor in a variety of enzymatic reactions. One of the main roles of SAM is the methylation of nucleic acids, proteins, and metabolites. Methylation often imparts regulatory control to DNA and proteins, and leads to an increase in the activity of specialized metabolites such as those developed as pharmaceuticals. There has been increased interest in using SAM analogs in methyltransferase-catalyzed modification of biomolecules...
2018: Methods in Enzymology
https://www.readbyqxmd.com/read/29779095/crispr-cas13a-targeting-of-rna-virus-in-plants
#15
Kulbhushan Chaudhary
This approach is quite promising to control plant viral diseases and create synthetic networks to better understand the structure/function relationship in RNA and proteins. Plant viruses are obligate intracellular parasites which causes enormous losses in crop yield worldwide. These viruses replicate into infected cells by highjacking host cellular machinery. Over the last two decades, diverse approaches such as conventional breeding, transgenic approach and gene silencing strategies have been used to control RNA viruses, but escaped due to high rate of mutation...
May 19, 2018: Plant Cell Reports
https://www.readbyqxmd.com/read/29778973/a-two-fatal-cases-of-poisoning-involving-new-cathinone-derivative-pv8
#16
Ewelina Pieprzyca, Rafał Skowronek, Małgorzata Korczyńska, Joanna Kulikowska, Małgorzata Chowaniec
α-Pyrrolidinoheptiophenone (PV8) is a representative of α-pyrrolidinophenone derivatives, a new group of synthetic cathinones. PV8 was first detected in illegal products in Japan in 2013. It is closely related to α-pyrrolidinovalerophenone (α-PVP), which was one of the most popular novel psychoactive substance (NPS) in Poland in years 2013-2015. The article presents two cases of fatal poisonings of 36-year-old man and 37-year-old woman, where a new cathinone derivative - PV8 was detected in biological material collected during medicolegal autopsies...
May 14, 2018: Legal Medicine
https://www.readbyqxmd.com/read/29778531/solvent-tolerance-in-bacteria-fulfilling-the-promise-of-the-biotech-era
#17
REVIEW
Hadiastri Kusumawardhani, Rohola Hosseini, Johannes H de Winde
The challenge of sustainably producing highly valuable chemical compounds requires specialized microbial cell factories because many of these compounds can be toxic to microbial hosts. Therefore, solvent-tolerant bacteria are promising production hosts because of their intrinsic tolerance towards these compounds. Recent studies have helped to elucidate the molecular mechanisms involved in solvent tolerance. Advances in synthetic biological tools will enable further development of streamlined solvent-tolerant production hosts and the transfer of solvent-tolerant traits to established industrial strains...
May 16, 2018: Trends in Biotechnology
https://www.readbyqxmd.com/read/29778035/formation-of-contact-active-antimicrobial-surfaces-by-covalent-grafting-of-quaternary-ammonium-compounds
#18
REVIEW
Poverenov Elena, Klein Miri
Different synthetic strategies for the formation of contact active antimicrobial materials utilizing covalent linkage of quaternary ammonium compounds (QACs) were reviewed. There is a demand to find methods that will prevent bacterial fouling without the release of antimicrobial agents, because biocides cause environment pollution and promote the development of bacteria resistance mechanisms. The contact active antimicrobial surfaces may provide a useful tool for this purpose. The covalent surface grafting of QACs seems to be a feasible and promising approach for the formation of safe and effective antimicrobial materials that could be utilized for medical devices, food industry, water treatment systems and other applications...
May 16, 2018: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/29777717/analysis-of-the-postoperative-periarticular-environment-and-influence-on-sustained-drug-delivery-from-a-gel-formulation
#19
Darren Svirskis, Waldron Martis, Prabhat Bhusal, Manisha Sharma, Renus Stowers, Simon W Young
Regional intraarticular delivery of local anaesthetics is effective in treating postoperative pain following total knee or hip replacement. Recent research efforts have been only partially successful in achieving sustained release of the analgesic agent, in part due to limited understanding of the biological environment into which these formulations are administered. This study aimed to detail the composition and properties of postoperative periarticular fluid (PO-PAF). PO-PAF was collected from 8 patients and the composition and physicochemical properties determined...
May 16, 2018: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/29777296/polymersomes-as-nanoreactors-for-preparative-biocatalytic-applications-current-challenges-and-future-perspectives
#20
REVIEW
Ludwig Klermund, Kathrin Castiglione
Polymersomes are hollow, spherical vesicles that are surrounded by a polymer membrane. The applied polymer must be amphiphilic to promote self-assembly in aqueous solution. At the same time, the polymer composition is highly versatile, which leads to diverse properties in terms of chemical and mechanical stability, membrane permeability and the ability to functionalize the membrane. By encapsulating chemical or biological substances within the polymersomes, drug delivery systems, cell mimetics or catalytic nanoreactors can be assembled...
May 17, 2018: Bioprocess and Biosystems Engineering
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