Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens

Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machi...

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Main Authors:	Feist, Adam M., Nagarajan, Harish, Rotaru, Amelia-Elena, Tremblay, Pier-Luc, Zhang, Tian, Nevin, Kelly P., Lovley, Derek R., Zengler, Karsten
Format:	Online
Language:	English
Published:	Public Library of Science 2014
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3998878/

id	pubmed-3998878
recordtype	oai_dc
spelling	pubmed-39988782014-04-29 Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens Feist, Adam M. Nagarajan, Harish Rotaru, Amelia-Elena Tremblay, Pier-Luc Zhang, Tian Nevin, Kelly P. Lovley, Derek R. Zengler, Karsten Research Article Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species. Public Library of Science 2014-04-24 /pmc/articles/PMC3998878/ /pubmed/24762737 http://dx.doi.org/10.1371/journal.pcbi.1003575 Text en © 2014 Feist et al http://creativecommons.org/licenses/by/4.0/ 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 credited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Feist, Adam M. Nagarajan, Harish Rotaru, Amelia-Elena Tremblay, Pier-Luc Zhang, Tian Nevin, Kelly P. Lovley, Derek R. Zengler, Karsten
spellingShingle	Feist, Adam M. Nagarajan, Harish Rotaru, Amelia-Elena Tremblay, Pier-Luc Zhang, Tian Nevin, Kelly P. Lovley, Derek R. Zengler, Karsten Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
author_facet	Feist, Adam M. Nagarajan, Harish Rotaru, Amelia-Elena Tremblay, Pier-Luc Zhang, Tian Nevin, Kelly P. Lovley, Derek R. Zengler, Karsten
author_sort	Feist, Adam M.
title	Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
title_short	Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
title_full	Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
title_fullStr	Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
title_full_unstemmed	Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens
title_sort	constraint-based modeling of carbon fixation and the energetics of electron transfer in geobacter metallireducens
description	Geobacter species are of great interest for environmental and biotechnology applications as they can carry out direct electron transfer to insoluble metals or other microorganisms and have the ability to assimilate inorganic carbon. Here, we report on the capability and key enabling metabolic machinery of Geobacter metallireducens GS-15 to carry out CO2 fixation and direct electron transfer to iron. An updated metabolic reconstruction was generated, growth screens on targeted conditions of interest were performed, and constraint-based analysis was utilized to characterize and evaluate critical pathways and reactions in G. metallireducens. The novel capability of G. metallireducens to grow autotrophically with formate and Fe(III) was predicted and subsequently validated in vivo. Additionally, the energetic cost of transferring electrons to an external electron acceptor was determined through analysis of growth experiments carried out using three different electron acceptors (Fe(III), nitrate, and fumarate) by systematically isolating and examining different parts of the electron transport chain. The updated reconstruction will serve as a knowledgebase for understanding and engineering Geobacter and similar species.
publisher	Public Library of Science
publishDate	2014
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3998878/
_version_	1612082207726239744

Constraint-Based Modeling of Carbon Fixation and the Energetics of Electron Transfer in Geobacter metallireducens

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