Engineering Translational Activators with CRISPR-Cas System.

abstract：:The ability to rapidly design, build, and test prototypes is of key importance to every engineering discipline. DNA assembly often serves as a rate limiting step of the prototyping cycle for synthetic biology. Recently developed DNA assembly methods such as isothermal assembly and type IIS restriction enzyme systems t...

journal_title：ACS synthetic biology

authors： Halleran AD,Swaminathan A,Murray RM

更新日期：2018-05-18 00:00:00

abstract：:Light-switchable proteins enable unparalleled control of molecular biological processes in live organisms. Previously, we have engineered red/far-red and green/red photoreversible two-component signal transduction systems (TCSs) with transcriptional outputs in E. coli and used them to characterize and control syntheti...

journal_title：ACS synthetic biology

authors： Schmidl SR,Sheth RU,Wu A,Tabor JJ

更新日期：2014-11-21 00:00:00

abstract：:Materials synthesized by organisms, such as bones and wood, combine the ability to self-repair with remarkable mechanical properties. This multifunctionality arises from the presence of living cells within the material and hierarchical assembly of different components across nanometer to micron scales. While creating ...

journal_title：ACS synthetic biology

authors： Charrier M,Li D,Mann VR,Yun L,Jani S,Rad B,Cohen BE,Ashby PD,Ryan KR,Ajo-Franklin CM

更新日期：2019-01-18 00:00:00

abstract：:Strain engineering for synthetic biology and metabolic engineering applications often requires the expression of foreign proteins that can reduce cellular fitness. In order to quantify and visualize the evolutionary stability dynamics in engineered populations of Escherichia coli , we constructed randomized CMY (cyan-...

journal_title：ACS synthetic biology

authors： Sleight SC,Sauro HM

更新日期：2013-09-20 00:00:00

abstract：:As light-regulated actuators, sensory photoreceptors underpin optogenetics and numerous applications in synthetic biology. Protein engineering has been applied to fine-tune the properties of photoreceptors and to generate novel actuators. For the blue-light-sensitive light-oxygen-voltage (LOV) photoreceptors, mutation...

journal_title：ACS synthetic biology

authors： Diensthuber RP,Engelhard C,Lemke N,Gleichmann T,Ohlendorf R,Bittl R,Möglich A

更新日期：2014-11-21 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：: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：:Heterochiral DNA strand-displacement reactions enable sequence-specific interfacing of oligonucleotide enantiomers, making it possible to interface native d-nucleic acids with molecular circuits built using nuclease-resistant l-DNA. To date, all heterochiral reactions have relied on peptide nucleic acid (PNA), which p...

journal_title：ACS synthetic biology

authors： Young BE,Sczepanski JT

更新日期：2019-12-20 00:00:00

abstract：:Eukaryotic transcriptional factors (TFs) typically recognize short genomic sequences alone or together with other proteins to modulate gene expression. Mapping of TF-DNA interactions in the genome is crucial for understanding the gene regulatory programs in cells. While chromatin immunoprecipitation followed by sequen...

journal_title：ACS synthetic biology

authors： Xiong X,Zhang Y,Yan J,Jain S,Chee S,Ren B,Zhao H

更新日期：2017-06-16 00:00:00

abstract：:The Synthetic Biology Open Language (SBOL) is an emerging synthetic biology data exchange standard, designed primarily for unambiguous and efficient machine-to-machine communication. However, manual editing of SBOL is generally difficult for nontrivial designs. Here, we describe ShortBOL, a lightweight SBOL scripting ...

journal_title：ACS synthetic biology

authors： Crowther M,Grozinger L,Pocock M,Taylor CPD,McLaughlin JA,Mısırlı G,Bartley BA,Beal J,Goñi-Moreno A,Wipat A

更新日期：2020-04-17 00:00:00

abstract：:Prenylated aromatic compounds are important intermediates in the biosynthesis of bioactive molecules such as 3-chromanols from plants, ubiquinones from prokaryotes and meroterpenoids from sponges. Biosynthesis of prenylated aromatic compounds using prokaryotic microorganisms has attracted increasing attention in the f...

journal_title：ACS synthetic biology

authors： He BB,Bu XL,Zhou T,Li SM,Xu MJ,Xu J

更新日期：2018-09-21 00:00:00

abstract：:DNA circuits have been widely used to develop biological computing devices because of their high programmability and versatility. Here, we propose an architecture for the systematic construction of DNA circuits for analog computation based on DNA strand displacement. The elementary gates in our architecture include ad...

journal_title：ACS synthetic biology

authors： Song T,Garg S,Mokhtar R,Bui H,Reif J

更新日期：2016-08-19 00:00:00

abstract：:Directed evolution experiments designed to improve the activity of a biocatalyst have increased in sophistication from the early days of completely random mutagenesis. Sequence-based and structure-based methods have been developed to identify "hotspot" positions that when randomized provide a higher frequency of benef...

journal_title：ACS synthetic biology

authors： Moore JC,Rodriguez-Granillo A,Crespo A,Govindarajan S,Welch M,Hiraga K,Lexa K,Marshall N,Truppo MD

更新日期：2018-07-20 00:00:00

abstract：:Exploiting simple types of symmetry common to many natural protein oligomers as a starting point, several recent studies have succeeded in engineering complex self-assembling protein architectures reminiscent but distinct from those evolved in the natural world. Designing symmetric protein cages with a wide range of p...

journal_title：ACS synthetic biology

authors： Cannon KA,Nguyen VN,Morgan C,Yeates TO

更新日期：2020-03-20 00:00:00

abstract：:As engineering foundations such as standards and abstraction begin to mature within synthetic biology, it is vital that genetic design automation (GDA) tools be developed to enable synthetic biologists to automatically select standardized DNA components from a library to meet the behavioral specification for a genetic...

journal_title：ACS synthetic biology

authors： Roehner N,Myers CJ

更新日期：2014-08-15 00:00:00

abstract：:Dramatic improvements to computational, robotic, and biological tools have enabled genetic engineers to conduct increasingly sophisticated experiments. Further development of biological tools offers a route to bypass complex or expensive mechanical operations, thereby reducing the time and cost of highly parallelized ...

journal_title：ACS synthetic biology

authors： Kittleson JT,DeLoache W,Cheng HY,Anderson JC

更新日期：2012-12-21 00:00:00

abstract：:Design and implementation of synthetic biological circuits highly depends on well-characterized, robust promoters with predictable input-output responses. While great progress has been made with heterotrophic model organisms such as Escherichia coli, the available variety of tunable promoter parts for phototrophic cya...

journal_title：ACS synthetic biology

authors： Behle A,Saake P,Germann AT,Dienst D,Axmann IM

更新日期：2020-04-17 00:00:00

abstract：:Fucosyl-oligosaccharides (FOSs) play physiologically important roles as prebiotics, neuronal growth factors, and inhibitors of enteropathogens. However, challenges in designed synthesis and mass production of FOSs hamper their industrial applications. Here, we report flexible biosynthetic routes to produce various FOS...

journal_title：ACS synthetic biology

authors： Yun EJ,Liu JJ,Lee JW,Kwak S,Yu S,Kim KH,Jin YS

更新日期：2019-02-15 00:00:00

abstract：:Synthetic biology relies on the manufacture of large and complex DNA constructs from libraries of genetic parts. Golden Gate and other Type IIS restriction enzyme-dependent DNA assembly methods enable rapid construction of genes and operons through one-pot, multifragment assembly, with the ordering of parts determined...

journal_title：ACS synthetic biology

authors： Potapov V,Ong JL,Kucera RB,Langhorst BW,Bilotti K,Pryor JM,Cantor EJ,Canton B,Knight TF,Evans TC Jr,Lohman GJS

更新日期：2018-11-16 00:00:00

abstract：:The measurement of gene expression using fluorescence markers has been a cornerstone of synthetic biology for the past two decades. However, the use of arbitrary units has limited the usefulness of these data for many quantitative purposes. Calibration of fluorescence measurements from flow cytometry and plate reader ...

journal_title：ACS synthetic biology

authors： Fedorec AJH,Robinson CM,Wen KY,Barnes CP

更新日期：2020-09-18 00:00:00

abstract：:In many biotechnological applications, it is useful for gene expression to be regulated by multiple signals, as this allows the programming of complex behavior. Here we implement, in Escherichia coli, a system that compares the concentration of two signal molecules, and tunes GFP expression proportionally to their rel...

journal_title：ACS synthetic biology

authors： Annunziata F,Matyjaszkiewicz A,Fiore G,Grierson CS,Marucci L,di Bernardo M,Savery NJ

更新日期：2017-10-20 00:00:00

abstract：:Novel approaches are needed to combat antibiotic resistance. Here, we describe a computational-experimental framework for the discovery of novel cryptic antimicrobial peptides (AMPs). The computational platform, based on previously validated antimicrobial scoring functions, indicated the activation peptide of pepsin A...

journal_title：ACS synthetic biology

authors： Pane K,Cafaro V,Avitabile A,Torres MT,Vollaro A,De Gregorio E,Catania MR,Di Maro A,Bosso A,Gallo G,Zanfardino A,Varcamonti M,Pizzo E,Di Donato A,Lu TK,de la Fuente-Nunez C,Notomista E

更新日期：2018-09-21 00:00:00

abstract：:To facilitate the construction of cell-free genetic devices, we evaluated the ability of 17 different fluorescent proteins to give easily detectable fluorescence signals in real-time from in vitro transcription-translation reactions with a minimal system consisting of T7 RNA polymerase and E. coli translation machiner...

journal_title：ACS synthetic biology

authors： Lentini R,Forlin M,Martini L,Del Bianco C,Spencer AC,Torino D,Mansy SS

更新日期：2013-09-20 00:00:00

abstract：:The Sc2.0 project is perhaps the largest synthetic biology project in the public domain, and ultimately aims to construct a new version of the humble brewer's yeast, Saccharomyces cerevisiae. Each year, the Sc2.0 consortium gather to discuss progress in this ambitious project and highlight new developments at the fore...

journal_title：ACS synthetic biology

authors： Walker RS,Cai Y

更新日期：2016-09-16 00:00:00

abstract：:Antimycins are a family of natural products generated from a hybrid nonribosomal peptide synthetase (NRPS)-polyketide synthase (PKS) assembly line. Although they possess an array of useful biological activities, their structural complexity makes chemical synthesis challenging, and their biosynthesis has thus far been ...

journal_title：ACS synthetic biology

authors： Liu J,Zhu X,Seipke RF,Zhang W

更新日期：2015-05-15 00:00:00

abstract：:Living organisms employ endogenous negative feedback loops to maintain homeostasis despite environmental fluctuations. A pressing open challenge in Synthetic Biology is to design and implement synthetic circuits to control host cells' behavior, in order to regulate and maintain desired conditions. To cope with the hig...

journal_title：ACS synthetic biology

authors： Fiore G,Matyjaszkiewicz A,Annunziata F,Grierson C,Savery NJ,Marucci L,di Bernardo M

更新日期：2017-03-17 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：:Type I modular polyketide synthases (PKSs) are polymerases that utilize acyl-CoAs as substrates. Each polyketide elongation reaction is catalyzed by a set of protein domains called a module. Each module usually contains an acyltransferase (AT) domain, which determines the specific acyl-CoA incorporated into each conde...

journal_title：ACS synthetic biology

authors： Yuzawa S,Deng K,Wang G,Baidoo EE,Northen TR,Adams PD,Katz L,Keasling JD

更新日期：2017-01-20 00:00:00

abstract：:The CRISPR-Cas9 nuclease has been repurposed as a tool for gene repression (CRISPRi). This catalytically dead Cas9 (dCas9) variant inhibits transcription by blocking either initiation or elongation by the RNA polymerase complex. Conditional control of dCas9-mediated repression has been achieved with inducible promoter...

journal_title：ACS synthetic biology

authors： Koopal B,Kruis AJ,Claassens NJ,Nobrega FL,van der Oost J

更新日期：2019-02-15 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