Literature DB >> 27084981

Principles for designing synthetic microbial communities.

Nathan I Johns1, Tomasz Blazejewski1, Antonio Lc Gomes2, Harris H Wang3.   

Abstract

Advances in synthetic biology to build microbes with defined and controllable properties are enabling new approaches to design and program multispecies communities. This emerging field of synthetic ecology will be important for many areas of biotechnology, bioenergy and bioremediation. This endeavor draws upon knowledge from synthetic biology, systems biology, microbial ecology and evolution. Fully realizing the potential of this discipline requires the development of new strategies to control the intercellular interactions, spatiotemporal coordination, robustness, stability and biocontainment of synthetic microbial communities. Here, we review recent experimental, analytical and computational advances to study and build multi-species microbial communities with defined functions and behavior for various applications. We also highlight outstanding challenges and future directions to advance this field.
Copyright © 2016 Elsevier Ltd. All rights reserved.

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Year:  2016        PMID: 27084981      PMCID: PMC4899134          DOI: 10.1016/j.mib.2016.03.010

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


  61 in total

1.  Distributed biological computation with multicellular engineered networks.

Authors:  Sergi Regot; Javier Macia; Núria Conde; Kentaro Furukawa; Jimmy Kjellén; Tom Peeters; Stefan Hohmann; Eulàlia de Nadal; Francesc Posas; Ricard Solé
Journal:  Nature       Date:  2010-12-08       Impact factor: 49.962

2.  Fitness and stability of obligate cross-feeding interactions that emerge upon gene loss in bacteria.

Authors:  Samay Pande; Holger Merker; Katrin Bohl; Michael Reichelt; Stefan Schuster; Luís F de Figueiredo; Christoph Kaleta; Christian Kost
Journal:  ISME J       Date:  2013-11-28       Impact factor: 10.302

3.  Bacterial farming by the fungus Morchella crassipes.

Authors:  Martin Pion; Jorge E Spangenberg; Anaele Simon; Saskia Bindschedler; Coralie Flury; Auriel Chatelain; Redouan Bshary; Daniel Job; Pilar Junier
Journal:  Proc Biol Sci       Date:  2013-10-30       Impact factor: 5.349

Review 4.  Microbial interactions: from networks to models.

Authors:  Karoline Faust; Jeroen Raes
Journal:  Nat Rev Microbiol       Date:  2012-07-16       Impact factor: 60.633

5.  A microbial model of economic trading and comparative advantage.

Authors:  Peter J Enyeart; Zachary B Simpson; Andrew D Ellington
Journal:  J Theor Biol       Date:  2014-09-28       Impact factor: 2.691

6.  Design and characterization of synthetic fungal-bacterial consortia for direct production of isobutanol from cellulosic biomass.

Authors:  Jeremy J Minty; Marc E Singer; Scott A Scholz; Chang-Hoon Bae; Jung-Ho Ahn; Clifton E Foster; James C Liao; Xiaoxia Nina Lin
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-19       Impact factor: 11.205

7.  A molecular mechanism that stabilizes cooperative secretions in Pseudomonas aeruginosa.

Authors:  Joao B Xavier; Wook Kim; Kevin R Foster
Journal:  Mol Microbiol       Date:  2010-11-02       Impact factor: 3.501

8.  Recoded organisms engineered to depend on synthetic amino acids.

Authors:  Alexis J Rovner; Adrian D Haimovich; Spencer R Katz; Zhe Li; Michael W Grome; Brandon M Gassaway; Miriam Amiram; Jaymin R Patel; Ryan R Gallagher; Jesse Rinehart; Farren J Isaacs
Journal:  Nature       Date:  2015-01-21       Impact factor: 49.962

9.  Spatial self-organization favors heterotypic cooperation over cheating.

Authors:  Babak Momeni; Adam James Waite; Wenying Shou
Journal:  Elife       Date:  2013-11-12       Impact factor: 8.140

10.  An Economic Framework of Microbial Trade.

Authors:  Joshua Tasoff; Michael T Mee; Harris H Wang
Journal:  PLoS One       Date:  2015-07-29       Impact factor: 3.240

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  55 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.  Massively parallel screening of synthetic microbial communities.

Authors:  Jared Kehe; Anthony Kulesa; Anthony Ortiz; Cheri M Ackerman; Sri Gowtham Thakku; Daniel Sellers; Seppe Kuehn; Jeff Gore; Jonathan Friedman; Paul C Blainey
Journal:  Proc Natl Acad Sci U S A       Date:  2019-06-11       Impact factor: 11.205

3.  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

Review 4.  The ecology of wine fermentation: a model for the study of complex microbial ecosystems.

Authors:  C G Conacher; N A Luyt; R K Naidoo-Blassoples; D Rossouw; M E Setati; F F Bauer
Journal:  Appl Microbiol Biotechnol       Date:  2021-04-09       Impact factor: 4.813

5.  Modeling microbial communities from atrazine contaminated soils promotes the development of biostimulation solutions.

Authors:  Xihui Xu; Raphy Zarecki; Shlomit Medina; Shany Ofaim; Xiaowei Liu; Chen Chen; Shunli Hu; Dan Brom; Daniella Gat; Seema Porob; Hanan Eizenberg; Zeev Ronen; Jiandong Jiang; Shiri Freilich
Journal:  ISME J       Date:  2018-10-05       Impact factor: 10.302

6.  Synthetic biology advances and applications in the biotechnology industry: a perspective.

Authors:  Leonard Katz; Yvonne Y Chen; Ramon Gonzalez; Todd C Peterson; Huimin Zhao; Richard H Baltz
Journal:  J Ind Microbiol Biotechnol       Date:  2018-06-18       Impact factor: 3.346

7.  Surface Display of Small Affinity Proteins on Synechocystis sp. Strain PCC 6803 Mediated by Fusion to the Major Type IV Pilin PilA1.

Authors:  Ivana Cengic; Mathias Uhlén; Elton P Hudson
Journal:  J Bacteriol       Date:  2018-07-25       Impact factor: 3.490

Review 8.  Emerging strategies for engineering microbial communities.

Authors:  Ryan Tsoi; Zhuojun Dai; Lingchong You
Journal:  Biotechnol Adv       Date:  2019-03-15       Impact factor: 14.227

9.  Microbial mutualism dynamics governed by dose-dependent toxicity of cross-fed nutrients.

Authors:  Breah LaSarre; Alexandra L McCully; Jay T Lennon; James B McKinlay
Journal:  ISME J       Date:  2016-11-29       Impact factor: 10.302

Review 10.  Emerging and evolving concepts in gene essentiality.

Authors:  Giulia Rancati; Jason Moffat; Athanasios Typas; Norman Pavelka
Journal:  Nat Rev Genet       Date:  2017-10-16       Impact factor: 53.242

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