Literature DB >> 29574330

Rational engineering of synthetic microbial systems: from single cells to consortia.

Philip Bittihn1, M Omar Din1, Lev S Tsimring1, Jeff Hasty2.   

Abstract

One promise of synthetic biology is to provide solutions for biomedical and industrial problems by rational design of added functionality in living systems. Microbes are at the forefront of this biological engineering endeavor due to their general ease of handling and their relevance in many potential applications from fermentation to therapeutics. In recent years, the field has witnessed an explosion of novel regulatory tools, from synthetic orthogonal transcription factors to posttranslational mechanisms for increased control over the behavior of synthetic circuits. Tool development has been paralleled by the discovery of principles that enable increased modularity and the management of host-circuit interactions. Engineered cell-to-cell communication bridges the scales from intracellular to population-level coordination. These developments facilitate the translation of more than a decade of circuit design into applications.
Copyright © 2018 Elsevier Ltd. All rights reserved.

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Year:  2018        PMID: 29574330      PMCID: PMC6151159          DOI: 10.1016/j.mib.2018.02.009

Source DB:  PubMed          Journal:  Curr Opin Microbiol        ISSN: 1369-5274            Impact factor:   7.934


  89 in total

1.  Blue light-mediated transcriptional activation and repression of gene expression in bacteria.

Authors:  Premkumar Jayaraman; Kavya Devarajan; Tze Kwang Chua; Hanzhong Zhang; Erry Gunawan; Chueh Loo Poh
Journal:  Nucleic Acids Res       Date:  2016-06-28       Impact factor: 16.971

2.  Multilayered genetic safeguards limit growth of microorganisms to defined environments.

Authors:  Ryan R Gallagher; Jaymin R Patel; Alexander L Interiano; Alexis J Rovner; Farren J Isaacs
Journal:  Nucleic Acids Res       Date:  2015-01-07       Impact factor: 16.971

3.  Syntrophic exchange in synthetic microbial communities.

Authors:  Michael T Mee; James J Collins; George M Church; Harris H Wang
Journal:  Proc Natl Acad Sci U S A       Date:  2014-04-28       Impact factor: 11.205

4.  Synthetic recombinase-based state machines in living cells.

Authors:  Nathaniel Roquet; Ava P Soleimany; Alyssa C Ferris; Scott Aaronson; Timothy K Lu
Journal:  Science       Date:  2016-07-21       Impact factor: 47.728

5.  Intrinsic biocontainment: multiplex genome safeguards combine transcriptional and recombinational control of essential yeast genes.

Authors:  Yizhi Cai; Neta Agmon; Woo Jin Choi; Alba Ubide; Giovanni Stracquadanio; Katrina Caravelli; Haiping Hao; Joel S Bader; Jef D Boeke
Journal:  Proc Natl Acad Sci U S A       Date:  2015-01-26       Impact factor: 11.205

6.  Engineering Escherichia coli coculture systems for the production of biochemical products.

Authors:  Haoran Zhang; Brian Pereira; Zhengjun Li; Gregory Stephanopoulos
Journal:  Proc Natl Acad Sci U S A       Date:  2015-06-25       Impact factor: 11.205

7.  A portable expression resource for engineering cross-species genetic circuits and pathways.

Authors:  Manish Kushwaha; Howard M Salis
Journal:  Nat Commun       Date:  2015-07-17       Impact factor: 14.919

8.  'Deadman' and 'Passcode' microbial kill switches for bacterial containment.

Authors:  Clement T Y Chan; Jeong Wook Lee; D Ewen Cameron; Caleb J Bashor; James J Collins
Journal:  Nat Chem Biol       Date:  2015-12-07       Impact factor: 15.040

9.  Antisense transcription as a tool to tune gene expression.

Authors:  Jennifer A N Brophy; Christopher A Voigt
Journal:  Mol Syst Biol       Date:  2016-01-14       Impact factor: 11.429

10.  Post-translational control of genetic circuits using Potyvirus proteases.

Authors:  Jesus Fernandez-Rodriguez; Christopher A Voigt
Journal:  Nucleic Acids Res       Date:  2016-06-13       Impact factor: 16.971

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  13 in total

1.  Spatiotemporal Dynamics of Synthetic Microbial Consortia in Microfluidic Devices.

Authors:  Razan N Alnahhas; James J Winkle; Andrew J Hirning; Bhargav Karamched; William Ott; Krešimir Josić; Matthew R Bennett
Journal:  ACS Synth Biol       Date:  2019-08-09       Impact factor: 5.110

2.  Synthetic microbial consortia for biosynthesis and biodegradation: promises and challenges.

Authors:  Shun Che; Yujie Men
Journal:  J Ind Microbiol Biotechnol       Date:  2019-07-05       Impact factor: 3.346

3.  The importance and future of biochemical engineering.

Authors:  Timothy A Whitehead; Scott Banta; William E Bentley; Michael J Betenbaugh; Christina Chan; Douglas S Clark; Corinne A Hoesli; Michael C Jewett; Beth Junker; Mattheos Koffas; Rashmi Kshirsagar; Amanda Lewis; Chien-Ting Li; Costas Maranas; E Terry Papoutsakis; Kristala L J Prather; Steffen Schaffer; Laura Segatori; Ian Wheeldon
Journal:  Biotechnol Bioeng       Date:  2020-05-29       Impact factor: 4.530

Review 4.  Controlling biofilms using synthetic biology approaches.

Authors:  Kuili Fang; Oh-Jin Park; Seok Hoon Hong
Journal:  Biotechnol Adv       Date:  2020-01-15       Impact factor: 14.227

5.  Engineering orthogonal synthetic timer circuits based on extracytoplasmic function σ factors.

Authors:  Daniela Pinto; Stefano Vecchione; Hao Wu; Marco Mauri; Thorsten Mascher; Georg Fritz
Journal:  Nucleic Acids Res       Date:  2018-08-21       Impact factor: 16.971

6.  A Novel Bioelectronic Reporter System in Living Cells Tested with a Synthetic Biological Comparator.

Authors:  Ji Zeng; Areen Banerjee; Jaewook Kim; Yijie Deng; Tim W Chapman; Ramez Daniel; Rahul Sarpeshkar
Journal:  Sci Rep       Date:  2019-05-13       Impact factor: 4.379

7.  Bacterial co-culture with cell signaling translator and growth controller modules for autonomously regulated culture composition.

Authors:  Kristina Stephens; Maria Pozo; Chen-Yu Tsao; Pricila Hauk; William E Bentley
Journal:  Nat Commun       Date:  2019-09-11       Impact factor: 14.919

8.  Compartmentalized microbes and co-cultures in hydrogels for on-demand bioproduction and preservation.

Authors:  Trevor G Johnston; Shuo-Fu Yuan; James M Wagner; Xiunan Yi; Abhijit Saha; Patrick Smith; Alshakim Nelson; Hal S Alper
Journal:  Nat Commun       Date:  2020-02-04       Impact factor: 14.919

9.  Winner-takes-all resource competition redirects cascading cell fate transitions.

Authors:  Rong Zhang; Hanah Goetz; Juan Melendez-Alvarez; Jiao Li; Tian Ding; Xiao Wang; Xiao-Jun Tian
Journal:  Nat Commun       Date:  2021-02-08       Impact factor: 14.919

10.  Genetically engineered control of phenotypic structure in microbial colonies.

Authors:  Philip Bittihn; Andriy Didovyk; Lev S Tsimring; Jeff Hasty
Journal:  Nat Microbiol       Date:  2020-04-13       Impact factor: 17.745

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