A System for Gene Expression Noise Control in Yeast.

abstract：:For infectious diseases, rapid and accurate identification of the pathogen is critical for effective management and treatment, but diagnosis remains challenging, particularly in resource-limited areas. Methods that accurately detect pathogen nucleic acids can provide robust, accurate, rapid, and ultrasensitive technol...

journal_title：ACS synthetic biology

authors： Aman R,Mahas A,Mahfouz M

更新日期：2020-06-19 00:00:00

abstract：:A negating functionality is fundamental to information processing of logic circuits within cells and computers. Aiming to adapt unutilized electronic concepts to the interrogation of signaling circuits in cells, we first took a bottom-up strategy whereby we created protein-based devices that perform negating Boolean l...

journal_title：ACS synthetic biology

authors： Razavi S,Su S,Inoue T

更新日期：2014-09-19 00:00:00

abstract：:The cellular response to hypoxia is orchestrated by HIF-1, a heterodimeric transcription factor composed of an α and a β subunit that enables cell survival under low oxygen conditions by altering the transcription of over 300 genes. There is significant evidence that inhibition of HIF-1 would be beneficial for cancer ...

journal_title：ACS synthetic biology

authors： Mistry IN,Tavassoli A

更新日期：2017-03-17 00:00:00

abstract：:Engineered bacteria promise to revolutionize diagnostics and therapeutics, yet many applications are precluded by the limited number of detectable signals. Here we present a general framework to engineer synthetic receptors enabling bacterial cells to respond to novel ligands. These receptors are activated via ligand-...

journal_title：ACS synthetic biology

authors： Chang HJ,Mayonove P,Zavala A,De Visch A,Minard P,Cohen-Gonsaud M,Bonnet J

更新日期：2018-01-19 00:00:00

abstract：:The cell contents are encapsulated within a compartment, the volume of which is a fundamental physical parameter that may affect intracompartmental reactions. However, there have been few studies to elucidate whether and how volume changes alone can affect the reaction kinetics. It is difficult to address these questi...

journal_title：ACS synthetic biology

authors： Matsuura T,Hosoda K,Kazuta Y,Ichihashi N,Suzuki H,Yomo T

更新日期：2012-09-21 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：: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：: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 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：:Mycoplasma hominis is a minimal human pathogen that is responsible for genital and neonatal infections. Despite many attempts, there is no efficient genetic tool to manipulate this bacterium, limiting most investigations of its pathogenicity and its uncommon energy metabolism that relies on arginine. The recent clonin...

journal_title：ACS synthetic biology

authors： Rideau F,Le Roy C,Descamps ECT,Renaudin H,Lartigue C,Bébéar C

更新日期：2017-05-19 00:00:00

abstract：:Cell-free gene expression systems are emerging as an important platform for a diverse range of synthetic biology and biotechnology applications, including production of robust field-ready biosensors. Here, we combine programmed cellular autolysis with a freeze-thaw or freeze-dry cycle to create a practical, reproducib...

journal_title：ACS synthetic biology

authors： Didovyk A,Tonooka T,Tsimring L,Hasty J

更新日期：2017-12-15 00:00:00

abstract：:In this work, we develop methodologies for analyzing and cross comparing metabolic models. We investigate three important metabolic networks to discuss the complexity of biological organization of organisms, modeling, and system properties. In particular, we analyze these metabolic networks because of their biotechnol...

journal_title：ACS synthetic biology

authors： Carapezza G,Umeton R,Costanza J,Angione C,Stracquadanio G,Papini A,Lió P,Nicosia G

更新日期：2013-05-17 00:00:00

abstract：:Cell-free systems, as part of the synthetic biology field, have become a critical platform in biological studies. However, there is a lack of research into developing a switch for a dynamical control of the transcriptional and translational process. The optogenetic tool has been widely proven as an ideal control switc...

journal_title：ACS synthetic biology

authors： Zhang P,Yang J,Cho E,Lu Y

更新日期：2020-08-21 00:00:00

abstract：:Directed evolution requires the creation of genetic diversity and subsequent screening or selection for improved variants. For DNA mutagenesis, conventional site-directed methods implicitly utilize the Boolean AND operator (creating all mutations simultaneously), producing a combinatorial explosion in the number of ge...

journal_title：ACS synthetic biology

authors： Currin A,Kwok J,Sadler JC,Bell EL,Swainston N,Ababi M,Day P,Turner NJ,Kell DB

更新日期：2019-06-21 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：:Microorganisms often use specific autoinducers other than common metabolites for quorum sensing (QS). Herein, we demonstrated that Escherichia coli produced sulfide (H2S, HS-, and S2-) with the concentrations proportionally correlated to its cell density. We then designed synthetic gene circuits that used H2S as an au...

journal_title：ACS synthetic biology

authors： Liu H,Fan K,Li H,Wang Q,Yang Y,Li K,Xia Y,Xun L

更新日期：2019-09-20 00:00:00

abstract：:Strategies to optimize a metabolic pathway often involve building a large collection of strains, each containing different versions of sequences that regulate the expression of pathway genes. Here, we develop reagents and methods to carry out this process at high efficiency in the yeast Saccharomyces cerevisiae. We id...

journal_title：ACS synthetic biology

authors： Cuperus JT,Lo RS,Shumaker L,Proctor J,Fields S

更新日期：2015-07-17 00:00:00

abstract：:Transform-MinER (Transforming Molecules in Enzyme Reactions) is a web application facilitating the exploration of chemical biosynthetic space, guiding the user toward promising start points for enzyme design projects or directed evolution experiments. Two types of search are possible: Molecule Search allows a user to ...

journal_title：ACS synthetic biology

authors： Tyzack JD,Ribeiro AJM,Borkakoti N,Thornton JM

更新日期：2019-11-15 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：:Phages are biological entities found in every ecosystem. Although much has been learned about them in past decades, significant knowledge gaps remain. Manipulating virulent phage genomes is challenging. To date, no efficient gene-editing tools exist for engineering virulent lactococcal phages. Lactococcus lactis is a ...

journal_title：ACS synthetic biology

authors： Lemay ML,Tremblay DM,Moineau S

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

abstract：:Scarless genetic manipulation of genomes is an essential tool for biological research. The restriction-modification (R-M) system is a defense system in bacteria that protects against invading genomes on the basis of its ability to distinguish foreign DNA from self DNA. Here, we designed an R-M system-mediated genome e...

journal_title：ACS synthetic biology

authors： Bai H,Deng A,Liu S,Cui D,Qiu Q,Wang L,Yang Z,Wu J,Shang X,Zhang Y,Wen T

更新日期：2018-01-19 00:00:00

abstract：:The deeply red-colored natural compound prodigiosin is a representative of the prodiginine alkaloid family, which possesses bioactivities as antimicrobial, antitumor, and antimalarial agents. Various bacteria including the opportunistic human pathogen Serratia marcescens and different members of the Streptomycetaceae ...

journal_title：ACS synthetic biology

authors： Klein AS,Domröse A,Bongen P,Brass HUC,Classen T,Loeschcke A,Drepper T,Laraia L,Sievers S,Jaeger KE,Pietruszka J

更新日期：2017-09-15 00:00:00

abstract：:Movement of molecules across membranes in response to a stimulus is a key component of cellular programming. Here, we characterize and manipulate the response of a protein-based piston capable of puncturing membranes in a pH-dependent manner. Our protein actuator consists of modified R bodies found in a bacterial endo...

journal_title：ACS synthetic biology

authors： Polka JK,Silver PA

更新日期：2016-04-15 00:00:00

abstract：:Lignans are plant secondary metabolites with a wide range of reported health-promoting bioactivities. Traditional routes toward these natural products involve, among others, the extraction from plant sources and chemical synthesis. However, the availability of the sources and the complex chemical structures of lignans...

journal_title：ACS synthetic biology

authors： Decembrino D,Ricklefs E,Wohlgemuth S,Girhard M,Schullehner K,Jach G,Urlacher VB

更新日期：2020-11-20 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：:Cell-free protein synthesis (CFPS) is a widely used research tool in systems and synthetic biology. However, if CFPS is to become a mainstream technology for applications such as point of care manufacturing, we must understand the performance limits and costs of these systems. Toward this question, we used sequence sp...

journal_title：ACS synthetic biology

authors： Vilkhovoy M,Horvath N,Shih CH,Wayman JA,Calhoun K,Swartz J,Varner JD

更新日期：2018-08-17 00:00:00

abstract：:Owl ( www.owlcad.org ) is a biodesign automation tool that generates electronic datasheets for synthetic biological parts using common formatting. Data can be retrieved automatically from existing repositories and modified in the Owl user interface (UI). Owl uses the data to generate an HTML page with standard typeset...

journal_title：ACS synthetic biology

authors： Appleton E,Tao J,Wheatley FC,Desai DH,Lozanoski TM,Shah PD,Awtry JA,Jin SS,Haddock TL,Densmore DM

更新日期：2014-12-19 00:00:00

abstract：:Due to autotrophic growing capacity and extremely rich secondary metabolism, plants should be preferred targets of synthetic biology. However, developments in plants usually run below those in other taxonomic groups. In this work we engineered genetic circuits capable of logic YES, OR and AND Boolean computation in pl...

journal_title：ACS synthetic biology

authors： Cordero T,Rosado A,Majer E,Jaramillo A,Rodrigo G,Daròs JA

更新日期：2018-10-19 00:00:00

abstract：:RNAs mediate many different processes that are central to cellular function. The ability to quantify or image RNAs in live cells is very useful in elucidating such functions of RNA. RNA aptamer-fluorogen systems have been increasingly used in labeling RNAs in live cells. Here, we use the malachite green aptamer (MGA),...

journal_title：ACS synthetic biology

authors： Yerramilli VS,Kim KH

更新日期：2018-03-16 00:00:00