Programming controlled adhesion of E. coli to target surfaces, cells, and tumors with synthetic adhesins.

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：: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：:Increasing protein expression levels is a key step in the commercial production of enzymes. Predicting promoter activity and translation initiation efficiency based solely on consensus sequences have so far met with mixed results. Here, we addressed this challenge using a "brute-force" approach by designing and synthe...

journal_title：ACS synthetic biology

authors： Sauer C,Ver Loren van Themaat E,Boender LGM,Groothuis D,Cruz R,Hamoen LW,Harwood CR,van Rij T

更新日期：2018-07-20 00:00:00

abstract：:The availability of different host chassis will greatly expand the range of applications in synthetic biology. Members of the Acetobacteraceae family of Gram-negative bacteria form an attractive class of nonmodel microorganisms that can be exploited to produce industrial chemicals, food and beverage, and biomaterials....

journal_title：ACS synthetic biology

authors： Teh MY,Ooi KH,Danny Teo SX,Bin Mansoor ME,Shaun Lim WZ,Tan MH

更新日期：2019-04-19 00:00:00

abstract：:We have previously engineered green/red and red/far red photoreversible E. coli phytochrome and cyanobacteriochrome (CBCR) two-component systems (TCSs) and utilized them to program tailor-made gene expression signals for gene circuit characterization. Here, we transport the UV-violet/green photoreversible CBCR TCS Uir...

journal_title：ACS synthetic biology

authors： Ramakrishnan P,Tabor JJ

更新日期：2016-07-15 00:00:00

abstract：:The versatility of Ca2+ signals allows it to regulate diverse cellular processes such as migration, apoptosis, motility and exocytosis. In some receptors (e.g., VEGFR2), Ca2+ signals are generated upon binding their ligand(s) (e.g., VEGF-A). Here, we employed a design strategy to engineer proteins that generate a Ca2+...

journal_title：ACS synthetic biology

authors： Qudrat A,Truong K

更新日期：2017-03-17 00:00:00

abstract：:Biological nitrogen fixation, a process unique to diazotrophic prokaryote, is catalyzed by the nitrogenase complex. There has been a long-standing interest in reconstituting a nitrogenase biosynthetic pathway in a eukaryotic host with the final aim of developing N2-fixing cereal crops. In this study, we report that a ...

journal_title：ACS synthetic biology

authors： Liu X,Wang M,Song Y,Li Y,Liu P,Shi H,Li Y,Hao T,Zhang H,Jiang W,Chen S,Li J

更新日期：2019-08-16 00:00:00

abstract：:Transcription activator-like effectors (TALEs) are proteins secreted by Xanthomonas bacteria to aid the infection of plant species. TALEs assist infections by binding to specific DNA sequences and activating the expression of host genes. Recent results show that TALE proteins consist of a central repeat domain, which ...

journal_title：ACS synthetic biology

authors： Moore R,Chandrahas A,Bleris L

更新日期：2014-10-17 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：:It is hard to bridge the gap between mathematical formulations and biological implementations of Turing patterns, yet this is necessary for both understanding and engineering these networks with synthetic biology approaches. Here, we model a reaction-diffusion system with two morphogens in a monostable regime, inspire...

journal_title：ACS synthetic biology

authors： Diambra L,Senthivel VR,Menendez DB,Isalan M

更新日期：2015-02-20 00:00:00

abstract：:The ATLAS of Biochemistry is a repository of both known and novel predicted biochemical reactions between biological compounds listed in the Kyoto Encyclopedia of Genes and Genomes (KEGG). ATLAS was originally compiled based on KEGG 2015, though the number of KEGG reactions has increased by almost 20 percent since the...

journal_title：ACS synthetic biology

authors： Hafner J,MohammadiPeyhani H,Sveshnikova A,Scheidegger A,Hatzimanikatis V

更新日期：2020-06-19 00:00:00

abstract：:Multiplex Automated Genome Engineering (MAGE) allows simultaneous mutagenesis of multiple target sites in bacterial genomes using short oligonucleotides. However, large-scale mutagenesis requires hundreds to thousands of unique oligos, which are costly to synthesize and impossible to scale-up by traditional phosphoram...

journal_title：ACS synthetic biology

authors： Bonde MT,Kosuri S,Genee HJ,Sarup-Lytzen K,Church GM,Sommer MO,Wang HH

更新日期：2015-01-16 00:00:00

abstract：:This paper describes the development of a new data acquisition standard for synthetic biology. This comprises the creation of a methodology that is designed to capture all the data, metadata, and protocol information associated with biopart characterization experiments. The new standard, called DICOM-SB, is based on t...

journal_title：ACS synthetic biology

authors： Sainz de Murieta I,Bultelle M,Kitney RI

更新日期：2016-08-19 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：:Dissimilatory metal-reducing bacteria, particularly those from the genus Shewanella, are of importance for bioremediation of metal contaminated sites and sustainable energy production. However, studies on this species have suffered from a lack of effective genetic tools for precise and high throughput genome manipulat...

journal_title：ACS synthetic biology

authors： Corts AD,Thomason LC,Gill RT,Gralnick JA

更新日期：2019-08-16 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：: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：: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：: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：: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：:Feedback control allows cells to dynamically sense and respond to environmental changes. However, synthetic controller designs can be challenging because of implementation issues, such as determining optimal expression levels for circuit components within a feedback loop. Here, we addressed this by coupling rational d...

journal_title：ACS synthetic biology

authors： Siu Y,Fenno J,Lindle JM,Dunlop MJ

更新日期：2018-01-19 00:00:00

abstract：:Crossbreeding is a classical yeast hybridization procedure, where the mating of haploid cells of opposite mating-type, MATa and MATα cells, produces a new heterozygous diploid. Here, we describe a method to generate haploid MATa and MATα cells using mating-type conversion caused by expression of the HO gene, which enc...

journal_title：ACS synthetic biology

authors： Fukuda N,Matsukura S,Honda S

更新日期：2013-12-20 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：:Most of the current methods for controlling the formation rate of a key protein or enzyme in cell factories rely on the manipulation of target genes within the pathway. In this article, we present a novel synthetic system for post-translational regulation of protein levels, FENIX, which provides both independent contr...

journal_title：ACS synthetic biology

authors： Durante-Rodríguez G,de Lorenzo V,Nikel PI

更新日期：2018-11-16 00:00:00

abstract：:Recent advances in the design and construction of synthetic multicelled systems in E. coli and S. cerevisiae suggest that it may be possible to implement sophisticated distributed algorithms with these relatively simple organisms. However, existing design frameworks for synthetic biology do not account for the unique ...

journal_title：ACS synthetic biology

authors： Jang SS,Oishi KT,Egbert RG,Klavins E

更新日期：2012-08-17 00:00:00

abstract：:A gene-directed chemical communication pathway between synthetic protocell signaling transmitters (lipid vesicles) and receivers (proteinosomes) was designed, built and tested using a bottom-up modular approach comprising small molecule transcriptional control, cell-free gene expression, porin-directed efflux, substra...

journal_title：ACS synthetic biology

authors： Tang TD,Cecchi D,Fracasso G,Accardi D,Coutable-Pennarun A,Mansy SS,Perriman AW,Anderson JLR,Mann S

更新日期：2018-02-16 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：:Allosteric proteins, which can sense different signals, are interesting biological parts for synthetic biology. In particular, the design of an artificial allosteric enzyme to sense an unnatural signal is both challenging and highly desired, for example, for a precise and dynamical control of fluxes of growth-essentia...

journal_title：ACS synthetic biology

authors： Chen Z,Rappert S,Zeng AP

更新日期：2015-02-20 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：: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