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Artificial transcriptional factor

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https://www.readbyqxmd.com/read/28235878/botrytis-fragariae-a-new-species-causing-gray-mold-on-strawberries-shows-high-frequencies-of-specific-and-efflux-based-fungicide-resistance
#1
Sabrina Rupp, Cecilia Plesken, Sibylle Rumsey, Madeline Dowling, Guido Schnabel, Roland W S Weber, Matthias Hahn
Botrytis cinerea causes pre- and postharvest decay of many fruit and vegetable crops. A survey in German strawberry fields revealed Botrytis strains that differed from B. cinerea in diagnostic PCR markers and growth appearance. Phylogenetic analyses showed these strains to belong to an undescribed species in Botrytis clade 2, named Botrytis fragariae sp. nov. Isolates of B. fragariae were detected in strawberry fields throughout Germany, sometimes at similar frequencies as B. cinerea, and in the Southeastern United States...
February 24, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28212751/stable-heritable-germline-silencing-directs-somatic-silencing-at-an-endogenous-locus
#2
Olga Minkina, Craig P Hunter
The importance of transgenerationally inherited epigenetic states to organismal fitness remains unknown as well-documented examples are often not amenable to mechanistic analysis or rely on artificial reporter loci. Here we describe an induced silenced state at an endogenous locus that persists, at 100% transmission without selection, for up to 13 generations. This unusually persistent silencing enables a detailed molecular genetic analysis of an inherited epigenetic state. We find that silencing is dependent on germline nuclear RNAi factors and post-transcriptional mechanisms...
February 16, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28199003/applications-of-induced-pluripotent-stem-cell-technologies-in-spinal-cord-injury
#3
REVIEW
Narihito Nagoshi, Hideyuki Okano
Numerous basic research studies have suggested the potential efficacy of neural precursor cell (NPC) transplantation in spinal cord injury (SCI). However, in most such studies the origin of the cells used was mainly fetal tissue or embryonic stem cells, both of which carry potential ethical concerns with respect to clinical use. The development of induced pluripotent stem cells (iPSCs) opened a new path toward regenerative medicine for SCI. iPSCs can be generated from somatic cells by induction of transcription factors, and induced to differentiate into NPCs with characteristics of cells of the central nervous system...
February 15, 2017: Journal of Neurochemistry
https://www.readbyqxmd.com/read/28185461/-epithelial-mesenchymal-transition-in-tumor-tissue-and-its-role-for-metastatic-spread-of-cancer
#4
V M Matějka, J Fínek, M Králíčková
BACKGROUND: Metastasis, recurrence, and resistance to chemotherapy are leading causes of the majority of cancer-related mortality worldwide. The process of metastasis can be artificially divided into a series of sequential, highly organized, and organ-specific steps. The underlying mechanisms are still poorly understood, but are believed to be mediated by epithelial-mesenchymal transition (EMT). First described in embryogenesis, EMT is a cellular reprogramming process in which epithelial cells acquire a mesenchymal phenotype...
2017: Klinická Onkologie: Casopis Ceské a Slovenské Onkologické Spolecnosti
https://www.readbyqxmd.com/read/28145403/regulation-of-ft-splicing-by-an-endogenous-cue-in-temperate-grasses
#5
Zhengrui Qin, Jiajie Wu, Shuaifeng Geng, Nan Feng, Fengjuan Chen, Xingchen Kong, Gaoyuan Song, Kai Chen, Aili Li, Long Mao, Liang Wu
Appropriate flowering timing is crucial for plant reproductive success. The florigen, FLOWERING LOCUS T (FT), interacts with 14-3-3 proteins and the bZIP transcription factor FD, functioning at core nodes in multiple flowering pathways. There are two FT homologues, FT1 and FT2, in Brachypodium distachyon. Here we show that FT2 undergoes age-dependent alternative splicing (AS), resulting in two splice variants (FT2α and FT2β). The FT2β-encoded protein cannot interact with FD or 14-3-3s but is able to form heterodimers with FT2α and FT1, thereby interfering with the florigen-mediated assembly of the flowering initiation complex...
February 1, 2017: Nature Communications
https://www.readbyqxmd.com/read/28141490/experimental-vertical-transmission-of-covert-mortality-nodavirus-cmnv-in-exopalaemon-carinicauda
#6
Qingli Zhang, Shuang Liu, Jitao Li, Yuan Tian, Chong Wang, Xiaoping Li, Tingting Xu, Jian Li
Viral covert mortality disease (VCMD) caused serious loss of shrimp aquaculture in China in recent years and the ridgetail white prawn Exopalaemon carinicauda was suspected to be one important factor in perpetuating the high prevalence of the covert mortality nodavirus (CMNV) infections for its perennial presence in the shrimp farming ponds and water from natural habitats. Experiments were carried out to determine the possibility of vertical transmission of CMNV in E. carinicauda in this study. CMNV infection in gonad, fertilized eggs, and larvae were investigated by using the methods of reverse transcription (RT) nested PCR (nRT-PCR), in situ hybrization (ISH) and transmission electron microscope (TEM)...
January 28, 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28111199/pericytes-of-multiple-organs-do-not-behave-as-mesenchymal-stem-cells-in%C3%A2-vivo
#7
Nuno Guimarães-Camboa, Paola Cattaneo, Yunfu Sun, Thomas Moore-Morris, Yusu Gu, Nancy D Dalton, Edward Rockenstein, Eliezer Masliah, Kirk L Peterson, William B Stallcup, Ju Chen, Sylvia M Evans
Pericytes are widely believed to function as mesenchymal stem cells (MSCs), multipotent tissue-resident progenitors with great potential for regenerative medicine. Cultured pericytes isolated from distinct tissues can differentiate into multiple cell types in vitro or following transplantation in vivo. However, the cell fate plasticity of endogenous pericytes in vivo remains unclear. Here, we show that the transcription factor Tbx18 selectively marks pericytes and vascular smooth muscle cells in multiple organs of adult mouse...
January 9, 2017: Cell Stem Cell
https://www.readbyqxmd.com/read/28110958/enhanced-in-cell-folding-of-reversibly-cationized-transcription-factor-using-amphipathic-peptide
#8
Midori Futami, Tomoki Nakano, Mayu Yasunaga, Masahiro Makihara, Takashi Asama, Yoshihisa Hagihara, Yoshihiro Nakajima, Junichiro Futami
The intracellular delivery of functionally active transcription factor proteins is emerging as a promising technique for artificial regulation of cellular functions. However, in addition to the cell membrane, which acts as a barrier to macromolecules, the aggregation-favored properties of structurally flexible transcription factor proteins limit the application of this method. In-cell folding technique can be used to overcome these issues. This technique solubilizes denatured protein by reversible alkyl-disulfide cationization (S-cationization), and simultaneously endows efficient intracellular delivery and folding to the biologically active conformation in the reducing environment of the cytosol...
January 16, 2017: Journal of Bioscience and Bioengineering
https://www.readbyqxmd.com/read/28095489/transgenic-expression-of-the-anti-parasitic-factor-tep1-in-the-malaria-mosquito-anopheles-gambiae
#9
Gloria Volohonsky, Ann-Katrin Hopp, Mélanie Saenger, Julien Soichot, Heidi Scholze, Jens Boch, Stéphanie A Blandin, Eric Marois
Mosquitoes genetically engineered to be resistant to Plasmodium parasites represent a promising novel approach in the fight against malaria. The insect immune system itself is a source of anti-parasitic genes potentially exploitable for transgenic designs. The Anopheles gambiae thioester containing protein 1 (TEP1) is a potent anti-parasitic protein. TEP1 is secreted and circulates in the mosquito hemolymph, where its activated cleaved form binds and eliminates malaria parasites. Here we investigated whether TEP1 can be used to create malaria resistant mosquitoes...
January 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28088729/new-insights-into-aox2-transcriptional-regulation-in-chlamydomonas-reinhardtii
#10
Mariya Ostroukhova, Zhanneta Zalutskaya, Elena Ermilova
A feature of the mitochondrial electron transport chain in plants, some protists and many fungi is the presence of two terminal oxidases, the energy-conserving cytochrome oxidase and another termed alternative oxidase (AOX). AOX branches from the main respiratory chain, directly coupling the oxidation of ubiquinol with reduction of oxygen to water. The AOX genes can be divided into two discrete subfamilies, AOX1 and AOX2. Although AOX has been proposed to play essential roles in stress tolerance of organisms, the role of subfamily AOX2 is largely unknown...
December 13, 2016: European Journal of Protistology
https://www.readbyqxmd.com/read/28065574/a-blueprint-for-a-synthetic-genetic-feedback-controller-to-reprogram-cell-fate
#11
Domitilla Del Vecchio, Hussein Abdallah, Yili Qian, James J Collins
To artificially reprogram cell fate, experimentalists manipulate the gene regulatory networks (GRNs) that maintain a cell's phenotype. In practice, reprogramming is often performed by constant overexpression of specific transcription factors (TFs). This process can be unreliable and inefficient. Here, we address this problem by introducing a new approach to reprogramming based on mathematical analysis. We demonstrate that reprogramming GRNs using constant overexpression may not succeed in general. Instead, we propose an alternative reprogramming strategy: a synthetic genetic feedback controller that dynamically steers the concentration of a GRN's key TFs to any desired value...
January 25, 2017: Cell Systems
https://www.readbyqxmd.com/read/28054069/challenge-and-perspective-the-relevance-of-ultraviolet-uv-radiation-and-the-vitamin-d-endocrine-system-vdes-for-psoriasis-and-other-inflammatory-skin-diseases
#12
Jörg Reichrath, Roman Saternus, Thomas Vogt
During evolution, the ability of many organisms to synthesize vitamin D photochemically represented, and still represents, a major driving factor for the development of life on earth. In humans because not more than 10-20% of the requirement of vitamin D can be satisfied by the diet (under most living conditions in the US and Europe), the remaining 80-90% need to be photochemically synthesized in the skin through the action of solar or artificial ultraviolet-B (UV-B) radiation. The skin is a key organ of the human body's vitamin D endocrine system (VDES), representing both the site of vitamin D synthesis and a target tissue for biologically active vitamin D metabolites...
January 5, 2017: Photochemical & Photobiological Sciences
https://www.readbyqxmd.com/read/28052257/a-fully-synthetic-transcriptional-platform-for-a-multicellular-eukaryote
#13
Justin Crocker, Albert Tsai, David L Stern
Regions of genomic DNA called enhancers encode binding sites for transcription factor proteins. Binding of activators and repressors increase and reduce transcription, respectively, but it is not understood how combinations of activators and repressors generate precise patterns of transcription during development. Here, we explore this problem using a fully synthetic transcriptional platform in Drosophila consisting of engineered transcription factor gradients and artificial enhancers. We found that binding sites for a transcription factor that makes DNA accessible are required together with binding sites for transcriptional activators to produce a functional enhancer...
January 3, 2017: Cell Reports
https://www.readbyqxmd.com/read/27987116/roles-of-pkr-in-differentiation-and-apoptosis-of-bone-related-cells
#14
REVIEW
Tatsuji Haneji
Double-stranded RNA-dependent protein kinase (PKR) is a serine/threonine protein kinase which is activated by double-stranded RNAs and related to several signal transduction pathways. To examine the effects of PKR on bone metabolism, we established PKR-K/R mutant cells in which amino acid lysine at 296 is substituted with arginine. PKR regulated apoptosis in osteoblastic cells via nuclear factor kappa-B (NF-κB) cascade. MC3T3-E1 cells cultured with osteoblast differentiation medium differentiated into osteoblasts, while the mutant cells did not differentiate into osteoblasts...
December 16, 2016: Anatomical Science International
https://www.readbyqxmd.com/read/27982027/engineering-orthogonal-dual-transcription-factors-for-multi-input-synthetic-promoters
#15
Andreas K Brödel, Alfonso Jaramillo, Mark Isalan
Synthetic biology has seen an explosive growth in the capability of engineering artificial gene circuits from transcription factors (TFs), particularly in bacteria. However, most artificial networks still employ the same core set of TFs (for example LacI, TetR and cI). The TFs mostly function via repression and it is difficult to integrate multiple inputs in promoter logic. Here we present to our knowledge the first set of dual activator-repressor switches for orthogonal logic gates, based on bacteriophage λ cI variants and multi-input promoter architectures...
December 16, 2016: Nature Communications
https://www.readbyqxmd.com/read/27940549/repression-of-telomerase-gene-promoter-requires-human-specific-genomic-context-and-is-mediated-by-multiple-hdac1-containing-corepressor-complexes
#16
De Cheng, Yuanjun Zhao, Shuwen Wang, Fan Zhang, Mariano Russo, Steven B McMahon, Jiyue Zhu
The human telomerase reverse transcriptase (hTERT) gene is repressed in most somatic cells, whereas the expression of the mouse mTert gene is widely detected. To understand the mechanisms of this human-specific repression, we constructed bacterial artificial chromosome (BAC) reporters using human and mouse genomic DNAs encompassing the TERT genes and neighboring loci. Upon chromosomal integration, the hTERT, but not the mTert, reporter was stringently repressed in telomerase-negative human cells in a histone deacetylase (HDAC)-dependent manner, replicating the expression of their respective endogenous genes...
December 9, 2016: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
https://www.readbyqxmd.com/read/27930301/reprogramming-cell-fate-with-a-genome-scale-library-of-artificial-transcription-factors
#17
Asuka Eguchi, Matthew J Wleklinski, Mackenzie C Spurgat, Evan A Heiderscheit, Anna S Kropornicka, Catherine K Vu, Devesh Bhimsaria, Scott A Swanson, Ron Stewart, Parameswaran Ramanathan, Timothy J Kamp, Igor Slukvin, James A Thomson, James R Dutton, Aseem Z Ansari
Artificial transcription factors (ATFs) are precision-tailored molecules designed to bind DNA and regulate transcription in a preprogrammed manner. Libraries of ATFs enable the high-throughput screening of gene networks that trigger cell fate decisions or phenotypic changes. We developed a genome-scale library of ATFs that display an engineered interaction domain (ID) to enable cooperative assembly and synergistic gene expression at targeted sites. We used this ATF library to screen for key regulators of the pluripotency network and discovered three combinations of ATFs capable of inducing pluripotency without exogenous expression of Oct4 (POU domain, class 5, TF 1)...
December 20, 2016: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/27908936/genome-editing-technologies-principles-and-applications
#18
REVIEW
Thomas Gaj, Shannon J Sirk, Sai-Lan Shui, Jia Liu
Targeted nucleases have provided researchers with the ability to manipulate virtually any genomic sequence, enabling the facile creation of isogenic cell lines and animal models for the study of human disease, and promoting exciting new possibilities for human gene therapy. Here we review three foundational technologies-clustered regularly interspaced short palindromic repeats (CRISPR)-CRISPR-associated protein 9 (Cas9), transcription activator-like effector nucleases (TALENs), and zinc-finger nucleases (ZFNs)...
December 1, 2016: Cold Spring Harbor Perspectives in Biology
https://www.readbyqxmd.com/read/27905661/artificial-cartilage-bio-matrix-formed-of-hyaluronic-acid-and-mg2-polyphosphate
#19
X Wang, M Ackermann, E Tolba, M Neufurth, F Wurm, Q Feng, S Wang, H C Schröder, W E Müller
Here we show that inorganic polyphosphate (polyP), a polyanionic metabolic regulator consisting of multiple phosphate residues linked by energy-rich phosphoanhydride bonds, is present in the synovial fluid. In a biomimetic approach, to enhance cartilage synthesis and regeneration, we prepared amorphous polyP microparticles with Mg2+ as counterions. The particles were characterised by X-ray diffraction (XRD), energy-dispersive X-ray (EDX) and Fourier transformed infrared spectroscopic (FTIR) analyses. Similar particles were obtained after addition of Mg2+ ions to a solution containing hyaluronic acid, as a major component of the synovial fluid, and soluble Na-polyP...
November 29, 2016: European Cells & Materials
https://www.readbyqxmd.com/read/27899062/scleraxis-is-essential-for-tendon-differentiation-by-equine-embryonic-stem-cells-and-in-equine-fetal-tenocytes
#20
Emma P Bavin, Francesca Atkinson, Tom Barsby, Debbie J Guest
The transcription factor scleraxis is required for tendon development and is upregulated during embryonic stem cell (ESC) differentiation into tenocytes. However, its role beyond early embryonic development is not defined. We utilized a short hairpin RNA to knock down scleraxis expression in ESCs and adult and fetal tenocytes. No effect on growth or morphology was observed in two-dimensional cultures. However, scleraxis knockdown in fetal tenocytes significantly reduced COL1A1, COMP, and SOX9 gene expression...
January 24, 2017: Stem Cells and Development
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