An upper limit on Gibbs energy dissipation governs cellular metabolism

Nature Metabolism
Bastian NiebelMatthias Heinemann

Abstract

The principles governing cellular metabolic operation are poorly understood. Because diverse organisms show similar metabolic flux patterns, we hypothesized that a fundamental thermodynamic constraint might shape cellular metabolism. Here, we develop a constraint-based model for Saccharomyces cerevisiae with a comprehensive description of biochemical thermodynamics including a Gibbs energy balance. Non-linear regression analyses of quantitative metabolome and physiology data reveal the existence of an upper rate limit for cellular Gibbs energy dissipation. By applying this limit in flux balance analyses with growth maximization as the objective function, our model correctly predicts the physiology and intracellular metabolic fluxes for different glucose uptake rates as well as the maximal growth rate. We find that cells arrange their intracellular metabolic fluxes in such a way that, with increasing glucose uptake rates, they can accomplish optimal growth rates but stay below the critical rate limit on Gibbs energy dissipation. Once all possibilities for intracellular flux redistribution are exhausted, cells reach their maximal growth rate. This principle also holds for Escherichia coli and different carbon sources. Our work pr...Continue Reading

References

Jun 25, 2002·Biophysical Journal·Daniel A BeardHong Qian
Nov 12, 2002·Biophysical Journal·Nathan D PriceBernhard Ø Palsson
Sep 4, 2003·Genome Biology·Jennifer L ReedBernhard O Palsson
Jan 14, 2004·Genome Research·Anthony P BurgardCostas D Maranas
Jan 13, 1950·Science·L VON BERTALANFFY
Jun 22, 2006·Molecular Systems Biology·Anne KümmelMatthias Heinemann
Dec 19, 2006·Biophysical Journal·Christopher S HenryVassily Hatzimanikatis
Jul 27, 2007·Proceedings of the National Academy of Sciences of the United States of America·Q K BegZ N Oltvai
May 23, 2009·Science·Matthew G Vander HeidenCraig B Thompson
Jun 13, 2009·Physical Review Letters·Ramin Golestanian
Jun 30, 2009·Nature Chemical Biology·Bryson D BennettJoshua D Rabinowitz
Mar 5, 2010·FEMS Yeast Research·Anne KümmelMatthias Heinemann
Mar 23, 2010·Metabolic Engineering·Sergio Bordel, Jens Nielsen
Sep 28, 2010·Physical Review Letters·Yih-Fan ChenJens-Christian Meiners
Nov 18, 2010·Biophysical Journal·Stefan J JolMatthias Heinemann
Feb 2, 2011·Biophysical Journal·Jan SchellenbergerBernhard Ø Palsson
Apr 20, 2011·Biophysical Chemistry·Robert A AlbertyHans V Westerhoff
Apr 22, 2011·Nature Reviews. Cancer·Willem H KoppenolChi V Dang
Jun 23, 2011·Molecular Systems Biology·Kai ZhuangRadhakrishnan Mahadevan
Aug 26, 2011·Journal of the Royal Society, Interface·J N Milstein, J-C Meiners
Dec 2, 2011·FEMS Yeast Research·Daphne H E W HubertsMatthias Heinemann
Mar 1, 2012·Nature Reviews. Microbiology·Nathan E LewisBernhard O Palsson
Apr 3, 2012·Nano Letters·Joshua N MilsteinJens-Christian Meiners
Apr 21, 2012·Proceedings of the National Academy of Sciences of the United States of America·Stephanie C WeberJulie A Theriot
May 5, 2012·Science·Robert SchuetzUwe Sauer
Jan 2, 2013·Proceedings of the National Academy of Sciences of the United States of America·Karl KochanowskiMatthias Heinemann
Jul 23, 2013·PLoS Computational Biology·Elad NoorRonan M T Fleming
Mar 4, 2014·PLoS Computational Biology·Elad NoorRon Milo
Aug 26, 2014·Molecular Systems Biology·Matthew ScottTerence Hwa
Aug 29, 2014·Nature Methods·Guillaume BaffouLudovic Jullien
Dec 10, 2014·Nature·Clement RiedelCarlos Bustamante
Feb 26, 2015·Molecular BioSystems·Karl PeeboRaivo Vilu
Aug 5, 2015·Proceedings of the National Academy of Sciences of the United States of America·Jeffrey K WeberVijay S Pande
Dec 8, 2015·Nature Biotechnology·Alexander SchmidtMatthias Heinemann

❮ Previous
Next ❯

Citations

Dec 10, 2019·Biotechnology and Bioengineering·Guan WangSiliang Zhang
Sep 10, 2020·Cells·Mohaned BenzartiJohannes Meiser
Aug 14, 2019·Proceedings of the National Academy of Sciences of the United States of America·Yu Chen, Jens Nielsen
Dec 31, 2019·Molecular Systems Biology·Francisca MonteiroMatthias Heinemann
May 31, 2020·Proceedings of the National Academy of Sciences of the United States of America·Vishnuvardhan MahamkaliEsteban Marcellin
Aug 21, 2020·Proceedings of the National Academy of Sciences of the United States of America·Zhijie ChenCarlos Bustamante
Dec 5, 2020·PloS One·Marcelo Rivas-Astroza, Raúl Conejeros
Nov 11, 2019·Emerging Topics in Life Sciences·Oliver R Maguire, Wilhelm T S Huck
Oct 15, 2020·Journal of the Royal Society, Interface·Samuel BrittonWilliam R Cannon
Dec 9, 2020·Entropy·Nima P SaadatOliver Ebenhöh
Feb 20, 2021·Genome Biology·David B BernsteinDaniel Segrè
Mar 28, 2021·Metabolic Engineering·Song-Min SchinnNathan E Lewis
Apr 8, 2021·FEMS Yeast Research·Carla Inês Soares RodriguesAndreas K Gombert
Jun 19, 2021·Proceedings of the National Academy of Sciences of the United States of America·Xingbo YangPeter J Foster
Jul 21, 2021·Biochemical Society Transactions·St Elmo WilkenOliver Ebenhöh
Jul 22, 2021·FEMS Yeast Research·Anna DumitriuDiethard Mattanovich
Sep 29, 2021·Experimental Gerontology·Emerson SantiagoMurat Acar

❮ Previous
Next ❯

Software Mentioned

FBA
CPLEX
ANTIGONE
General Algebraic Modeling System ( GAMS )

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.

Related Papers

The New Zealand Medical Journal
L Ding
Doklady Akademii nauk SSSR
A A Vakulenko, S V Gasteva
Methods of Biochemical Analysis
AJR. American Journal of Roentgenology
A R Whittemore
© 2021 Meta ULC. All rights reserved