Integrated In Silico Analysis of Pathway Designs for Synthetic Photo-Electro-Autotrophy

Show full item record



Volpers , M , Claassens , N J , Noor , E , van der Oost , J , de Vos , W M , Kengen , S W M & dos Santos , V A P M 2016 , ' Integrated In Silico Analysis of Pathway Designs for Synthetic Photo-Electro-Autotrophy ' , PLoS One , vol. 11 , no. 6 , 0157851 .

Title: Integrated In Silico Analysis of Pathway Designs for Synthetic Photo-Electro-Autotrophy
Author: Volpers, Michael; Claassens, Nico J.; Noor, Elad; van der Oost, John; de Vos, Willem M.; Kengen, Serve W. M.; dos Santos, Vitor A. P. Martins
Contributor organization: Medicum
Willem Meindert Vos de / Principal Investigator
Immunobiology Research Program
Research Programs Unit
Department of Bacteriology and Immunology
de Vos & Salonen group
Date: 2016-06-23
Language: eng
Number of pages: 25
Belongs to series: PLoS One
ISSN: 1932-6203
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.
3111 Biomedicine
Peer reviewed: Yes
Usage restriction: openAccess
Self-archived version: publishedVersion

Files in this item

Total number of downloads: Loading...

Files Size Format View
Integrated_In_Silico_Analysis.pdf 1.950Mb PDF View/Open

This item appears in the following Collection(s)

Show full item record