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dc.contributor.author
Volpers, Michael
dc.contributor.author
Claassens, Nico J.
dc.contributor.author
Noor, Elad
dc.contributor.author
Oost, John van der
dc.contributor.author
De Vos, Willem M.
dc.contributor.author
Kengen, Servé W.M.
dc.contributor.author
Dos Santos, Vitor A.P.M.
dc.date.accessioned
2018-08-09T11:54:53Z
dc.date.available
2017-06-12T08:42:50Z
dc.date.available
2018-08-09T11:54:53Z
dc.date.issued
2016-06-23
dc.identifier.issn
1932-6203
dc.identifier.other
10.1371/journal.pone.0157851
en_US
dc.identifier.uri
http://hdl.handle.net/20.500.11850/118129
dc.identifier.doi
10.3929/ethz-b-000118129
dc.description.abstract
The strong advances in synthetic biology enable the engineering of novel functions and complex biological features in unprecedented ways, such as implementing synthetic autotrophic metabolism into heterotrophic hosts. A key challenge for the sustainable production of fuels and chemicals entails the engineering of synthetic autotrophic organisms that can effectively and efficiently fix carbon dioxide by using sustainable energy sources. This challenge involves the integration of carbon fixation and energy uptake systems. A variety of carbon fixation pathways and several types of photosystems and other energy uptake systems can be chosen and, potentially, modularly combined to design synthetic autotrophic metabolism. Prior to implementation, these designs can be evaluated by the combination of several computational pathway analysis techniques. Here we present a systematic, integrated in silico analysis of photo-electro-autotrophic pathway designs, consisting of natural and synthetic carbon fixation pathways, a proton-pumping rhodopsin photosystem for ATP regeneration and an electron uptake pathway. We integrated Flux Balance Analysis of the heterotrophic chassis Escherichia coli with kinetic pathway analysis and thermodynamic pathway analysis (Max-min Driving Force). The photo-electro-autotrophic designs are predicted to have a limited potential for anaerobic, autotrophic growth of E. coli, given the relatively low ATP regenerating capacity of the proton pumping rhodopsin photosystems and the high ATP maintenance of E. coli. If these factors can be tackled, our analysis indicates the highest growth potential for the natural reductive tricarboxylic acid cycle and the synthetic pyruvate synthase–pyruvate carboxylate -glyoxylate bicycle. Both carbon fixation cycles are very ATP efficient, while maintaining fast kinetics, which also results in relatively low estimated protein costs for these pathways. Furthermore, the synthetic bicycles are highly thermodynamic favorable under conditions analysed. However, the most important challenge identified for improving photo-electro-autotrophic growth is increasing the proton-pumping rate of the rhodopsin photosystems, allowing for higher ATP regeneration. Alternatively, other designs of autotrophy may be considered, therefore the herein presented integrated modeling approach allows synthetic biologists to evaluate and compare complex pathway designs before experimental implementation.
en_US
dc.format
application/pdf
en_US
dc.language.iso
en
en_US
dc.publisher
Public Library of Science
en_US
dc.rights.uri
http://creativecommons.org/licenses/by/4.0/
dc.title
Integrated in silico analysis of pathway designs for synthetic photo-electro-autotrophy
en_US
dc.type
Journal Article
dc.rights.license
Creative Commons Attribution 4.0 International
ethz.journal.title
PLoS ONE
ethz.journal.volume
11
en_US
ethz.journal.issue
6
en_US
ethz.journal.abbreviated
PLoS ONE
ethz.pages.start
e0157851
en_US
ethz.size
25 p.
en_US
ethz.version.deposit
publishedVersion
en_US
ethz.identifier.wos
ethz.identifier.scopus
ethz.identifier.nebis
006206116
ethz.publication.place
San Francisco, CA
en_US
ethz.publication.status
published
en_US
ethz.date.deposited
2017-06-12T08:49:16Z
ethz.source
ECIT
ethz.identifier.importid
imp59365486d897830390
ethz.ecitpid
pub:180071
ethz.eth
yes
en_US
ethz.availability
Open access
en_US
ethz.rosetta.installDate
2017-08-03T09:01:52Z
ethz.rosetta.lastUpdated
2021-02-15T01:11:47Z
ethz.rosetta.versionExported
true
ethz.COinS
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