Robust Characterization of Two Distinct Glutarate Sensing Transcription Factors of Pseudomonas putida l-Lysine Metabolism.

abstract：:The microbial ability to resist stressful environmental conditions and chemical inhibitors is of great industrial and medical interest. Much of the data related to mutation-based stress resistance, however, is scattered through the academic literature, making it difficult to apply systematic analyses to this wealth of...

journal_title：ACS synthetic biology

authors： Winkler JD,Halweg-Edwards AL,Erickson KE,Choudhury A,Pines G,Gill RT

更新日期：2016-12-16 00:00:00

abstract：:To spatially control biochemical functions at specific sites within a genome, we have engineered a synthetic switch that activates when bound to its DNA target site. The system uses two CRISPR-Cas complexes to colocalize components of a de novo-designed protein switch (Co-LOCKR) to adjacent sites in the genome. Coloca...

journal_title：ACS synthetic biology

authors： Kirkpatrick RL,Lewis K,Langan RA,Lajoie MJ,Boyken SE,Eakman M,Baker D,Zalatan JG

更新日期：2020-09-18 00:00:00

abstract：:Bacteria of the order Actinomycetales are one of the most important sources of pharmacologically active and industrially relevant secondary metabolites. Unfortunately, many of them are still recalcitrant to genetic manipulation, which is a bottleneck for systematic metabolic engineering. To facilitate the genetic mani...

journal_title：ACS synthetic biology

authors： Tong Y,Charusanti P,Zhang L,Weber T,Lee SY

更新日期：2015-09-18 00:00:00

abstract：:Lactams are an important class of commodity chemicals used in the manufacture of nylons, with millions of tons produced every year. Biological production of lactams could be greatly improved by high-throughput sensors for lactam biosynthesis. To identify biosensors of lactams, we applied a chemoinformatic approach ins...

journal_title：ACS synthetic biology

authors： Zhang J,Barajas JF,Burdu M,Ruegg TL,Dias B,Keasling JD

更新日期：2017-03-17 00:00:00

abstract：:The extracellular expression of recombinant proteins using laboratory strains of Escherichia coli is now routinely achieved using naturally secreted substrates, such as YebF or the osmotically inducible protein Y (OsmY), as carrier molecules. However, secretion efficiency through these pathways needs to be improved fo...

journal_title：ACS synthetic biology

authors： Natarajan A,Haitjema CH,Lee R,Boock JT,DeLisa MP

更新日期：2017-05-19 00:00:00

abstract：:Genome engineering technologies now enable precise manipulation of organism genotype, but can be limited in scalability by their design requirements. Here we describe Merlin ( http://merlincad.org ), an open-source web-based tool to assist biologists in designing experiments using multiplex automated genome engineerin...

journal_title：ACS synthetic biology

authors： Quintin M,Ma NJ,Ahmed S,Bhatia S,Lewis A,Isaacs FJ,Densmore D

更新日期：2016-06-17 00:00:00

abstract：:To program cells in a dynamic manner, synthetic biologists require precise control over the threshold levels and timing of gene expression. However, in practice, modulating gene expression is widely carried out using prototypical ligand-inducible promoters, which have limited tunability and spatiotemporal resolution. ...

journal_title：ACS synthetic biology

authors： Jayaraman P,Yeoh JW,Zhang J,Poh CL

更新日期：2018-11-16 00:00:00

abstract：:Cell-free systems provide a versatile platform for the development of low-cost, easy-to-use sensors for diverse analytes. However, sensor affinity dictates response sensitivity, and improving binding affinity can be challenging. Here, we describe efforts to address this problem while developing a biosensor for vitamin...

journal_title：ACS synthetic biology

authors： McNerney MP,Piorino F,Michel CL,Styczynski MP

更新日期：2020-02-21 00:00:00

abstract：:To elucidate the function of mevalonate-5-pyrophosphate decarboxylase (MVD) and farnesyl pyrophosphate synthase (FPS) in triterpene biosynthesis, the genes governing the expression of these enzymes were transformed into Panax ginseng hairy roots. All the transgenic lines showed higher expression levels of PgMVD and Pg...

journal_title：ACS synthetic biology

authors： Kim YK,Kim YB,Uddin MR,Lee S,Kim SU,Park SU

更新日期：2014-10-17 00:00:00

abstract：:Constructing efficient cellular factories often requires integration of heterologous pathways for synthesis of novel compounds and improved cellular productivity. Few genomic sites are routinely used, however, for efficient integration and expression of heterologous genes, especially in nonmodel hosts. Here, a data-gu...

journal_title：ACS synthetic biology

authors： Brady JR,Tan MC,Whittaker CA,Colant NA,Dalvie NC,Love KR,Love JC

更新日期：2020-09-18 00:00:00

abstract：:Biosensors are important components of many synthetic biology and metabolic engineering applications. Here, we report a second generation of Saccharomyces cerevisiae digoxigenin and progesterone biosensors based on destabilized dimeric ligand-binding domains that undergo ligand-induced stabilization. The biosensors, c...

journal_title：ACS synthetic biology

authors： Jester BW,Tinberg CE,Rich MS,Baker D,Fields S

更新日期：2018-10-19 00:00:00

abstract：:We study translation repression in bacteria by engineering a regulatory circuit that functions as a binding assay for RNA binding proteins (RBP) in vivo. We do so by inducing expression of a fluorescent protein-RBP chimera, together with encoding its binding site at various positions within the ribosomal initiation re...

journal_title：ACS synthetic biology

authors： Katz N,Cohen R,Solomon O,Kaufmann B,Atar O,Yakhini Z,Goldberg S,Amit R

更新日期：2018-12-21 00:00:00

abstract：:Bacterial microcompartments are subcellular compartments found in many prokaryotes; they consist of a protein shell that encapsulates enzymes that perform a variety of functions. The shell protects the cell from potentially toxic intermediates and colocalizes enzymes for higher efficiency. Accordingly, it is of consid...

journal_title：ACS synthetic biology

authors： Sutter M,McGuire S,Ferlez B,Kerfeld CA

更新日期：2019-04-19 00:00:00

abstract：:In this paper, we present a new strategy for microprinting dense bacterial communities with a prescribed organization on a substrate. Unlike conventional bioprinting techniques that require bioinks, through optogenetic manipulation, we directly manipulated the behaviors of Pseudomonas aeruginosa to allow these living ...

journal_title：ACS synthetic biology

authors： Huang Y,Xia A,Yang G,Jin F

更新日期：2018-05-18 00:00:00

abstract：:Author: Recently, increasing research in siderophores has been dedicated to their possible medical applications in diagnostics and therapeutics for human pathogenic infections. Fusarinine C (FsC) is a natural hydroxamate siderophore that harbors three amino groups, which allow the easy chemical modification of FsC for...

journal_title：ACS synthetic biology

authors： Lu Y,Wang H,Wang Z,Cong Y,Zhang P,Liu G,Liu C,Chi Z,Chi Z

更新日期：2019-08-16 00:00:00

abstract：:We recently developed a technique for rapidly and reversibly inhibiting protein function through light-inducible sequestration of proteins away from their normal sites of action. Here, we adapt this method for inducible inactivation of Bem1, a scaffold protein involved in budding yeast polarity. We find that acute inh...

journal_title：ACS synthetic biology

authors： Jost AP,Weiner OD

更新日期：2015-10-16 00:00:00

abstract：:Simple computation can be performed using the interactions between single-stranded molecules of DNA. These interactions are typically toehold-mediated strand displacement reactions in a well-mixed solution. We demonstrate that a DNA circuit with tethered reactants is a distributed system and show how it can be describ...

journal_title：ACS synthetic biology

authors： Boemo MA,Lucas AE,Turberfield AJ,Cardelli L

更新日期：2016-08-19 00:00:00

abstract：:In response to emergent antibiotic resistance, new strategies are needed to enhance the effectiveness of existing antibiotics. Here, we describe a phagemid-delivered, RNA-mediated system capable of directly knocking down antibiotic resistance phenotypes. Small regulatory RNAs (sRNAs) were designed to specifically inhi...

journal_title：ACS synthetic biology

authors： Libis VK,Bernheim AG,Basier C,Jaramillo-Riveri S,Deyell M,Aghoghogbe I,Atanaskovic I,Bencherif AC,Benony M,Koutsoubelis N,Löchner AC,Marinkovic ZS,Zahra S,Zegman Y,Lindner AB,Wintermute EH

更新日期：2014-12-19 00:00:00

abstract：:Medium-chain fatty acids (MCFAs) are key intermediates in the synthesis of medium-chain chemicals including α-olefins and dicarboxylic acids. In bacteria, microbial production of MCFAs is limited by the activity and product profile of fatty acyl-ACP thioesterases. Here, we engineer a heterologous bacterial medium-chai...

journal_title：ACS synthetic biology

authors： Sarria S,Bartholow TG,Verga A,Burkart MD,Peralta-Yahya P

更新日期：2018-05-18 00:00:00

abstract：:Microbial mutualisms play critical roles in a diverse number of ecosystems and have the potential to improve the efficiency of bioproduction for desirable chemicals. We investigate the growth of a photosynthetic cyanobacterium, Synechococcus elongatus PCC 7942, and a diazotroph, Azotobacter vinelandii, in coculture. F...

journal_title：ACS synthetic biology

authors： Smith MJ,Francis MB

更新日期：2016-09-16 00:00:00

abstract：:While predictable design of a genetic circuit's output is a major goal of synthetic biology, it remains a significant challenge because DNA binding sites in the cell affect the concentration of available transcription factors (TF). To mitigate this problem, we propose to use a TF that results from the (reversible) pho...

journal_title：ACS synthetic biology

authors： Nilgiriwala KS,Jiménez J,Rivera PM,Del Vecchio D

更新日期：2015-05-15 00:00:00

abstract：:Traditional enzyme characterization methods are low-throughput and therefore limit engineering efforts in synthetic biology and biotechnology. Here, we propose a DNA-linked enzyme-coupled assay (DLEnCA) to monitor enzyme reactions in a high-throughput manner. Throughput is improved by removing the need for protein pur...

journal_title：ACS synthetic biology

authors： Sukovich DJ,Modavi C,de Raad M,Prince RN,Anderson JC

更新日期：2015-07-17 00:00:00

abstract：:Secondary structure formation of mRNA, caused by desynchronization of transcription and translation, is known to impact gene expression in vivo. Yet, inactivation of mRNA by secondary structures in cell-free protein expression is frequently overlooked. Transcription and translation rates are often not highly synchroni...

journal_title：ACS synthetic biology

authors： Hansen MM,Ventosa Rosquelles M,Yelleswarapu M,Maas RJ,van Vugt-Jonker AJ,Heus HA,Huck WT

更新日期：2016-12-16 00:00:00

abstract：:Understanding the molecular mechanisms underlying antibiotic resistance requires concerted efforts in enzymology and medicinal chemistry. Here we describe a new synthetic biology approach to antibiotic development, where the presence of tetracycline antibiotics is linked to a life-death selection in Saccharomyces cere...

journal_title：ACS synthetic biology

authors： Scott LH,Mathews JC,Flematti GR,Filipovska A,Rackham O

更新日期：2018-08-17 00:00:00

abstract：:Sporulated cells have potential as time-delayed expression chassis of proteins for applications such as "on-demand" biologics production, whole cell biosensors, or oral vaccines. However, the desired attributes of high expression rates and low product variances are difficult to maintain from germinated spores. In this...

journal_title：ACS synthetic biology

authors： Tamiev D,Lantz A,Vezeau G,Salis H,Reuel NF

更新日期：2019-10-18 00:00:00

abstract：:The ability of RNA to sense, regulate, and store information is an attractive attribute for a variety of functional applications including the development of regulatory control devices for synthetic biology. RNA folding and function is known to be highly context sensitive, which limits the modularity and reuse of RNA ...

journal_title：ACS synthetic biology

authors： Kent R,Halliwell S,Young K,Swainston N,Dixon N

更新日期：2018-07-20 00:00:00

abstract：:Amyloids are highly ordered, hierarchal protein nanoassemblies. Functional amyloids in bacterial biofilms, such as Escherichia coli curli fibers, are formed by the polymerization of monomeric proteins secreted into the extracellular space. Curli is synthesized by living cells, is primarily composed of the major curlin...

journal_title：ACS synthetic biology

authors： Seker UO,Chen AY,Citorik RJ,Lu TK

更新日期：2017-02-17 00:00:00

abstract：:The design of synthetic cells requires a detailed understanding of the relevance of genes and gene networks underlying complex cellular phenotypes. Transposon-sequencing (Tn-seq) and constraint-based metabolic modeling can be used to probe the core genetic and metabolic networks underlying a biological process. Integr...

journal_title：ACS synthetic biology

authors： diCenzo GC,Mengoni A,Fondi M

更新日期：2019-01-18 00:00:00

abstract：:A common approach to design genetic circuits is to compose gene expression cassettes together. While appealing, this modular approach is challenged by the fact that expression of each gene depends on the availability of transcriptional/translational resources, which is in turn determined by the presence of other genes...

journal_title：ACS synthetic biology

authors： Qian Y,Huang HH,Jiménez JI,Del Vecchio D

更新日期：2017-07-21 00:00:00

abstract：:The Design-Build-Test-Learn (DBTL) cycle, facilitated by exponentially improving capabilities in synthetic biology, is an increasingly adopted metabolic engineering framework that represents a more systematic and efficient approach to strain development than historical efforts in biofuels and biobased products. Here, ...

journal_title：ACS synthetic biology

authors： Opgenorth P,Costello Z,Okada T,Goyal G,Chen Y,Gin J,Benites V,de Raad M,Northen TR,Deng K,Deutsch S,Baidoo EEK,Petzold CJ,Hillson NJ,Garcia Martin H,Beller HR

更新日期：2019-06-21 00:00:00