Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)

de la Torre, Andrea; Metivier, Aisha; Chu, Frances; Laurens, Lieve M. L.; Beck, David A. C.; Pienkos, Philip T.; Lidstrom, Mary E.; Kalyuzhnaya, Marina G.

doi:10.1186/s12934-015-0377-3

Title: Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)

Abstract

Methane-utilizing bacteria (methanotrophs) are capable of growth on methane and are attractive systems for bio-catalysis. However, the application of natural methanotrophic strains to large-scale production of value-added chemicals/biofuels requires a number of physiological and genetic alterations. An accurate metabolic model coupled with flux balance analysis can provide a solid interpretative framework for experimental data analyses and integration.

Authors:: de la Torre, Andrea; Metivier, Aisha; Chu, Frances; Laurens, Lieve M. L.; Beck, David A. C.; Pienkos, Philip T.; Lidstrom, Mary E.; Kalyuzhnaya, Marina G.

Publication Date:: Wed Nov 25 00:00:00 EST 2015

Research Org.:: National Renewable Energy Laboratory (NREL), Golden, CO (United States)

Sponsoring Org.:: USDOE Advanced Research Projects Agency - Energy (ARPA-E); USDOE Office of Energy Efficiency and Renewable Energy (EERE)

OSTI Identifier:: 1618797

Alternate Identifier(s):: OSTI ID: 1233694

Report Number(s):: NREL/JA-5100-65604
Journal ID: ISSN 1475-2859; 188; PII: 377

Grant/Contract Number:: AR0000350; AC36-08GO28308

Resource Type:: Published Article

Journal Name:: Microbial Cell Factories

Additional Journal Information:: Journal Name: Microbial Cell Factories Journal Volume: 14 Journal Issue: 1; Journal ID: ISSN 1475-2859

Publisher:: Springer Science + Business Media

Country of Publication:: United Kingdom

Language:: English

Subject:: 09 BIOMASS FUELS; 59 BASIC BIOLOGICAL SCIENCES; methane metabolism; flux balance model; Methylomicrobium buryatense; strains 5G and 5G(B1); metabolic engineering of methane utilization

Citation Formats


                    de la Torre, Andrea, Metivier, Aisha, Chu, Frances, Laurens, Lieve M. L., Beck, David A. C., Pienkos, Philip T., Lidstrom, Mary E., and Kalyuzhnaya, Marina G. Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1).  United Kingdom: N. p., 2015. 
Web.  doi:10.1186/s12934-015-0377-3.

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                    de la Torre, Andrea, Metivier, Aisha, Chu, Frances, Laurens, Lieve M. L., Beck, David A. C., Pienkos, Philip T., Lidstrom, Mary E., & Kalyuzhnaya, Marina G. Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1).  United Kingdom.  https://doi.org/10.1186/s12934-015-0377-3

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                    de la Torre, Andrea, Metivier, Aisha, Chu, Frances, Laurens, Lieve M. L., Beck, David A. C., Pienkos, Philip T., Lidstrom, Mary E., and Kalyuzhnaya, Marina G. Wed .  
"Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)".  United Kingdom.  https://doi.org/10.1186/s12934-015-0377-3.

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@article{osti_1618797,

  title        = {Genome-scale metabolic reconstructions and theoretical investigation of methane conversion in Methylomicrobium buryatense strain 5G(B1)},

  author       = {de la Torre, Andrea and Metivier, Aisha and Chu, Frances and Laurens, Lieve M. L. and Beck, David A. C. and Pienkos, Philip T. and Lidstrom, Mary E. and Kalyuzhnaya, Marina G.},

  abstractNote = {Methane-utilizing bacteria (methanotrophs) are capable of growth on methane and are attractive systems for bio-catalysis. However, the application of natural methanotrophic strains to large-scale production of value-added chemicals/biofuels requires a number of physiological and genetic alterations. An accurate metabolic model coupled with flux balance analysis can provide a solid interpretative framework for experimental data analyses and integration.},

  doi          = {10.1186/s12934-015-0377-3},

  journal      = {Microbial Cell Factories},

  number       = 1,

  volume       = 14,

  place        = {United Kingdom},

  year         = {Wed Nov 25 00:00:00 EST 2015},

  month        = {Wed Nov 25 00:00:00 EST 2015}

}

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Figures / Tables:

Fig. 1: Overview of central metabolic pathways in M. buryatense 5GB1 predicted from genomic and transcriptomic data; Color indicates level of relative gene expression: very high (>5000RPKM); high (>1000); intermediate (>500), low (>200), very low (>100) and “not expressed” (<60 RPKM, shown in grey). Ru5P ribulose 5-phosphate, He6P 3-hexulose 6-phosphate,more » F6P fructose 6-phosphate, KDPG 2-keto-3-deoxy 6-phosphogluconate, F1,6P fructose 1,6-bisphosphate, DAP dihydroxyacetone phosphate, G3P glyceraldehyde 3-phosphate, 3PG 3-phosphoglycerate, 2PG 2-phosphoglycerate, PEP phosphoenolpyruvate, 6PG 6-phosphogluconate, S7P sedoheptulose 7-phosphate, E4P erythrose 4-phosphate, R5P ribose 5-phosphate, X5P xylulose 5-phosphate, G6P glucose 6-phosphate, G1,3P glycerate-1,3-bisphosphate

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Table 1 (p. 6)

Table 1 (Continued) (p. 7)

Table 1 (Continued) (p. 8)

Fig. 3 (p. 10)

Table 2 (p. 11)

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