Literature DB >> 30880142

Emerging strategies for engineering microbial communities.

Ryan Tsoi1, Zhuojun Dai2, Lingchong You3.   

Abstract

From biosynthesis to bioremediation, microbes have been engineered to address a variety of biotechnological applications. A promising direction in these endeavors is harnessing the power of designer microbial consortia that consist of multiple populations with well-defined interactions. Consortia can accomplish tasks that are difficult or potentially impossible to achieve using monocultures. Despite their potential, the rules underlying microbial community maintenance and function (i.e. the task the consortium is engineered to carry out) are not well defined, though rapid progress is being made. This limited understanding is in part due to the greater challenges associated with increased complexity when dealing with multi-population interactions. Here, we review key features and design strategies that emerge from the analysis of both natural and engineered microbial communities. These strategies can provide new insights into natural consortia and expand the toolbox available to engineers working to develop novel synthetic consortia.
Copyright © 2019 Elsevier Inc. All rights reserved.

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Year:  2019        PMID: 30880142      PMCID: PMC6710121          DOI: 10.1016/j.biotechadv.2019.03.011

Source DB:  PubMed          Journal:  Biotechnol Adv        ISSN: 0734-9750            Impact factor:   14.227


  86 in total

1.  3D printing of microscopic bacterial communities.

Authors:  Jodi L Connell; Eric T Ritschdorff; Marvin Whiteley; Jason B Shear
Journal:  Proc Natl Acad Sci U S A       Date:  2013-10-07       Impact factor: 11.205

2.  Coexistence among Epiphytic Bacterial Populations Mediated through Nutritional Resource Partitioning.

Authors:  M Wilson; S E Lindow
Journal:  Appl Environ Microbiol       Date:  1994-12       Impact factor: 4.792

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.  Environmental factors influencing the structural dynamics of soil microbial communities during assisted phytostabilization of acid-generating mine tailings: a mesocosm experiment.

Authors:  Alexis Valentín-Vargas; Robert A Root; Julia W Neilson; Jon Chorover; Raina M Maier
Journal:  Sci Total Environ       Date:  2014-09-18       Impact factor: 7.963

5.  Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics.

Authors:  William R Harcombe; William J Riehl; Ilija Dukovski; Brian R Granger; Alex Betts; Alex H Lang; Gracia Bonilla; Amrita Kar; Nicholas Leiby; Pankaj Mehta; Christopher J Marx; Daniel Segrè
Journal:  Cell Rep       Date:  2014-05-01       Impact factor: 9.423

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.  Engineering industrial Saccharomyces cerevisiae strains for xylose fermentation and comparison for switchgrass conversion.

Authors:  Ronald E Hector; Bruce S Dien; Michael A Cotta; Nasib Qureshi
Journal:  J Ind Microbiol Biotechnol       Date:  2010-11-25       Impact factor: 3.346

8.  Simultaneous fermentation of biomass-derived sugars to ethanol by a co-culture of an engineered Escherichia coli and Saccharomyces cerevisiae.

Authors:  Liang Wang; Sean W York; Lonnie O Ingram; K T Shanmugam
Journal:  Bioresour Technol       Date:  2018-11-07       Impact factor: 9.642

9.  High-order species interactions shape ecosystem diversity.

Authors:  Eyal Bairey; Eric D Kelsic; Roy Kishony
Journal:  Nat Commun       Date:  2016-08-02       Impact factor: 14.919

Review 10.  Disentangling Interactions in the Microbiome: A Network Perspective.

Authors:  Mehdi Layeghifard; David M Hwang; David S Guttman
Journal:  Trends Microbiol       Date:  2016-12-02       Impact factor: 17.079

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  12 in total

Review 1.  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

2.  Chaos in synthetic microbial communities.

Authors:  Behzad D Karkaria; Angelika Manhart; Alex J H Fedorec; Chris P Barnes
Journal:  PLoS Comput Biol       Date:  2022-10-10       Impact factor: 4.779

Review 3.  Microbiome engineering for bioremediation of emerging pollutants.

Authors:  L Paikhomba Singha; Pratyoosh Shukla
Journal:  Bioprocess Biosyst Eng       Date:  2022-08-27       Impact factor: 3.434

4.  Interfacing gene circuits with microelectronics through engineered population dynamics.

Authors:  M Omar Din; Aida Martin; Ivan Razinkov; Nicholas Csicsery; Jeff Hasty
Journal:  Sci Adv       Date:  2020-05-22       Impact factor: 14.136

5.  Mg, K-containing microparticle: A possible active principle of a culture extract produced by a microbial consortium.

Authors:  Toru Higashinakagawa; Haruhisa Kikuchi; Hidekazu Kuwayama
Journal:  PLoS One       Date:  2021-11-03       Impact factor: 3.240

6.  Engineering consortia by polymeric microbial swarmbots.

Authors:  Lin Wang; Xi Zhang; Chenwang Tang; Pengcheng Li; Runtao Zhu; Jing Sun; Yunfeng Zhang; Hua Cui; Jiajia Ma; Xinyu Song; Weiwen Zhang; Xiang Gao; Xiaozhou Luo; Lingchong You; Ye Chen; Zhuojun Dai
Journal:  Nat Commun       Date:  2022-07-05       Impact factor: 17.694

7.  Enhanced production of heterologous proteins by a synthetic microbial community: Conditions and trade-offs.

Authors:  Marco Mauri; Jean-Luc Gouzé; Hidde de Jong; Eugenio Cinquemani
Journal:  PLoS Comput Biol       Date:  2020-04-13       Impact factor: 4.475

8.  Biotransformation of 2,4-dinitrotoluene in a phototrophic co-culture of engineered Synechococcus elongatus and Pseudomonas putida.

Authors:  Derek T Fedeson; Pia Saake; Patricia Calero; Pablo Iván Nikel; Daniel C Ducat
Journal:  Microb Biotechnol       Date:  2020-02-16       Impact factor: 5.813

9.  Investigating the dynamics of microbial consortia in spatially structured environments.

Authors:  Sonali Gupta; Tyler D Ross; Marcella M Gomez; Job L Grant; Philip A Romero; Ophelia S Venturelli
Journal:  Nat Commun       Date:  2020-05-15       Impact factor: 14.919

10.  Dynamics of microbial competition, commensalism, and cooperation and its implications for coculture and microbiome engineering.

Authors:  Peng Xu
Journal:  Biotechnol Bioeng       Date:  2020-09-21       Impact factor: 4.530

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