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Towards a Computational Model of a Methane Producing Archaeum
Joint Authors
Ellermeier, Jeremy R.
Luthey-Schulten, Zaida
Peterson, Joseph R.
Kohler, Petra R. A.
Jain, Ankur
Labhsetwar, Piyush
Ha, Taekjip
Metcalf, William W.
Source
Issue
Vol. 2014, Issue 2014 (31 Dec. 2014), pp.1-18, 18 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2014-03-04
Country of Publication
Egypt
No. of Pages
18
Main Subjects
Abstract EN
Progress towards a complete model of the methanogenic archaeum Methanosarcina acetivorans is reported.
We characterized size distribution of the cells using differential interference contrast microscopy, finding them to be ellipsoidal with mean length and width of 2.9 μm and 2.3 μm, respectively, when grown on methanol and 30% smaller when grown on acetate.
We used the single molecule pull down (SiMPull) technique to measure average copy number of the Mcr complex and ribosomes.
A kinetic model for the methanogenesis pathways based on biochemical studies and recent metabolic reconstructions for several related methanogens is presented.
In this model, 26 reactions in the methanogenesis pathways are coupled to a cell mass production reaction that updates enzyme concentrations.
RNA expression data (RNA-seq) measured for cell cultures grown on acetate and methanol is used to estimate relative protein production per mole of ATP consumed.
The model captures the experimentally observed methane production rates for cells growing on methanol and is most sensitive to the number of methyl-coenzyme-M reductase (Mcr) and methyl-tetrahydromethanopterin:coenzyme-M methyltransferase (Mtr) proteins.
A draft transcriptional regulation network based on known interactions is proposed which we intend to integrate with the kinetic model to allow dynamic regulation.
American Psychological Association (APA)
Peterson, Joseph R.& Labhsetwar, Piyush& Ellermeier, Jeremy R.& Kohler, Petra R. A.& Jain, Ankur& Ha, Taekjip…[et al.]. 2014. Towards a Computational Model of a Methane Producing Archaeum. Archaea،Vol. 2014, no. 2014, pp.1-18.
https://search.emarefa.net/detail/BIM-506472
Modern Language Association (MLA)
Peterson, Joseph R.…[et al.]. Towards a Computational Model of a Methane Producing Archaeum. Archaea No. 2014 (2014), pp.1-18.
https://search.emarefa.net/detail/BIM-506472
American Medical Association (AMA)
Peterson, Joseph R.& Labhsetwar, Piyush& Ellermeier, Jeremy R.& Kohler, Petra R. A.& Jain, Ankur& Ha, Taekjip…[et al.]. Towards a Computational Model of a Methane Producing Archaeum. Archaea. 2014. Vol. 2014, no. 2014, pp.1-18.
https://search.emarefa.net/detail/BIM-506472
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-506472