Stoichiometric model for evaluating the metabolic capabilities of the facultative methylotroph Methylobacterium extorquens AM1, with application to reconstruction of C(3) and C(4) metabolism

Biotechnology and Bioengineering
Stephen J Van Dien, Mary E Lidstrom

Abstract

A stoichiometric model of central metabolism was developed based on new information regarding metabolism in this bacterium to evaluate the steady-state growth capabilities of the serine cycle facultative methylotroph Methylobacterium extorquens AM1 during growth on methanol, succinate, and pyruvate. The model incorporates 20 reversible and 47 irreversible reactions, 65 intracellular metabolites, and experimentally-determined biomass composition. The flux space for this underdetermined system of equations was defined by finding the elementary modes, and constraints based on experimental observations were applied to determine which of these elementary modes give a reasonable description of the flux distribution for each growth substrate. The predicted biomass yield, on a carbon atom basis, is 49.8%, which agrees well with the range of published experimental yield measurements (37-50%). The model predicts the cell to be limited by reduced pyridine nucleotide availability during methylotrophic growth, but energy-limited when growing on multicarbon substrates. Mutation and phenotypic analysis was used to explore a previously unknown region of the metabolic map and to confirm the stoichiometry of the pathways in this region used in t...Continue Reading

References

Dec 1, 1976·Biotechnology and Bioengineering·I GoldbergR I Mateles
Jan 1, 1991·Biotechnology·L E Erickson, P Tuitemwong
Jan 1, 1991·Biotechnology·Y Tani
May 16, 1998·Proceedings of the National Academy of Sciences of the United States of America·C H Schilling, B O Palsson
Dec 11, 1999·Nucleic Acids Research·P D KarpA Pellegrini-Toole
Jul 6, 2000·Applied and Environmental Microbiology·P GourdonA Guyonvarch
Aug 10, 2000·Metabolic Engineering·F Naeimpoor, F Mavituna
Dec 2, 2000·Biotechnology Progress·J S Edwards, B O Palsson
Aug 20, 1963·Biochimica Et Biophysica Acta·H SAITO, K I MIURA
Aug 1, 1992·Biotechnology and Bioengineering·E O Voit
Mar 15, 1993·Biotechnology and Bioengineering·J J Vallino, G Stephanopoulos
Jun 5, 1993·Biotechnology and Bioengineering·A VarmaB O Palsson

❮ Previous
Next ❯

Citations

Jul 6, 2006·Archives of Microbiology·Xiaofeng Guo, Mary E Lidstrom
Nov 19, 2008·Applied Microbiology and Biotechnology·Cong T TrinhFriedrich Srienc
Jan 12, 2013·Applied Microbiology and Biotechnology·Kianoush Khosravi-DaraniKenji Tanaka
Oct 29, 2003·Current Opinion in Biotechnology·Kenneth J KauffmanJeremy S Edwards
Feb 8, 2003·Trends in Biotechnology·Steffen Klamt, Jörg Stelling
Sep 12, 2002·Biophysical Chemistry·Stefan Schuster, Ionela Zevedei-Oancea
May 27, 2003·Trends in Biochemical Sciences·Jason A PapinBernhard O Palsson
Nov 15, 2002·Nature·Athel Cornish-Bowden, María Luz Cárdenas
Nov 15, 2002·Nature·Jörg StellingErnst Dieter Gilles
Oct 21, 2004·Nature Reviews. Microbiology·Nathan D PriceBernhard Ø Palsson
Mar 6, 2009·Proceedings of the National Academy of Sciences of the United States of America·Rémi PeyraudJulia A Vorholt
Nov 3, 2004·Genome Research·Priti PharkyaCostas D Maranas
Jul 6, 2004·European Journal of Biochemistry·Hermann-Georg Holzhütter
Jun 17, 2008·Applied and Environmental Microbiology·Young J ChoiCarlos B Míguez
Feb 8, 2006·Applied and Environmental Microbiology·Tim J StrovasMary E Lidstrom
May 27, 2008·Journal of Bacteriology·Gregory J CrowtherMary E Lidstrom
Jul 24, 2007·Journal of Bacteriology·Tim J StrovasMary E Lidstrom
May 6, 2003·Journal of Bacteriology·Ludmila ChistoserdovaMary E Lidstrom
Apr 18, 2003·Journal of Bacteriology·Jennifer L Reed, Bernhard Ø Palsson
Jan 22, 2005·PLoS Biology·Christopher J MarxMary E Lidstrom
Dec 3, 2010·PLoS Computational Biology·Niels Klitgord, Daniel Segrè
Jul 6, 2014·PLoS Computational Biology·Hsuan-Chao ChiuElhanan Borenstein
Jan 28, 2016·IET Systems Biology·Min-juan XuXiao-mei Zhu
Oct 29, 2014·Biotechnology for Biofuels·Bo Hu, Mary E Lidstrom
Apr 27, 2010·Water Research·Carolina Cruz ViggiMauro Majone

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.