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      Microbial Consortia Engineering for Cellular Factories: in vitro to in silico systems

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          Abstract

          This mini-review discusses the current state of experimental and computational microbial consortia engineering with a focus on cellular factories. A discussion of promising ecological theories central to community resource usage is presented to facilitate interpretation of consortial designs. Recent case studies exemplifying different resource usage motifs and consortial assembly templates are presented. The review also highlights in silico approaches to design and to analyze consortia with an emphasis on stoichiometric modeling methods. The discipline of microbial consortia engineering possesses a widely accepted potential to generate highly novel and effective bio-catalysts for applications from biofuels to specialty chemicals to enhanced mineral recovery.

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          What is flux balance analysis?

          Jeffrey Orth, Ines Thiele, Bernhard Palsson (2010)
          Article 0 comments Cited 550 times – based on 0 reviews     Review now
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            Competitive and cooperative metabolic interactions in bacterial communities.

            Shiri Freilich, Raphy Zarecki, Omer Eilam … (2011)
            Revealing the ecological principles that shape communities is a major challenge of the post-genomic era. To date, a systematic approach for describing inter-species interactions has been lacking. Here we independently predict the competitive and cooperative potential between 6,903 bacterial pairs derived from a collection of 118 species' metabolic models. We chart an intricate association between competition and cooperation indicating that the cooperative potential is maximized at moderate levels of resource overlap. Utilizing ecological data from 2,801 samples, we explore the associations between bacterial interactions and coexistence patterns. The high level of competition observed between species with mutual-exclusive distribution patterns supports the role of competition in community assembly. Cooperative interactions are typically unidirectional with no obvious benefit to the giver. However, within their natural communities, bacteria typically form close cooperative loops resulting in indirect benefit to all species involved. These findings are important for the future design of consortia optimized towards bioremediation and bio-production applications.
            Article 0 comments Cited 197 times – based on 0 reviews     Review now
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              Contribution to the Energetics of Evolution.

              A J Lotka (1922)
              Article 0 comments Cited 170 times – based on 0 reviews     Review now
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                Author and article information

                Journal
                Journal ID (nlm-ta): Comput Struct Biotechnol J
                Journal ID (iso-abbrev): Comput Struct Biotechnol J
                Journal ID (publisher-id): CSBJ
                Title: Computational and Structural Biotechnology Journal
                Publisher: Research Network of Computational and Structural Biotechnology (RNCSB) Organization
                ISSN (Electronic): 2001-0370
                Publication date (Electronic): 01 December 2012
                Publication date Collection: 2012
                Volume: 3
                Electronic Location Identifier: e201210017
                Affiliations
                [a ]Department of Chemical and Biological Engineering & Center for Biofilm Engineering, Montana State University, Bozeman, MT 59717, United States
                Author notes
                Citation
                Bernstein HC, Carlson RP (2012) Microbial Consortia Engineering for Cellular Factories: in vitro to in silico systems. Computational and Structural Biotechnology Journal. 3 (4): e201210017. doi: http://dx.doi.org/10.5936/csbj.201210017
                [* ] Corresponding author. E-mail address: rossc@ 123456biofilm.montana.edu (Ross P Carlson)
                Article
                Publisher ID: CSBJ-3-e201210017
                DOI: 10.5936/csbj.201210017
                PMC ID: 3962199
                PubMed ID: 24688677
                SO-VID: 6d0b8f2c-48e0-4447-992f-60d12967769f
                Copyright © © Bernstein and Carlson.
                License:

                This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly cited.

                History
                Date received : 15 September 2012
                Date revision received : 24 November 2012
                Date accepted : 28 November 2012
                Categories
                Subject: Mini Review

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