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For: Niebel B, Leupold S, Heinemann M. An upper limit on Gibbs energy dissipation governs cellular metabolism. Nat Metab 2019;1:125-132. [PMID: 32694810 DOI: 10.1038/s42255-018-0006-7] [Citation(s) in RCA: 87] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Accepted: 10/23/2018] [Indexed: 12/20/2022]

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Number Cited by Other Article(s)
1
Massazza DA, Busalmen JP, Romeo HE. Decoupled respiration in electro-active bacteria. Commun Biol 2025;8:692. [PMID: 40316720 PMCID: PMC12048519 DOI: 10.1038/s42003-025-08125-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2024] [Accepted: 04/24/2025] [Indexed: 05/04/2025]  Open
2
Parkavousi L, Rana N, Golestanian R, Saha S. Enhanced Stability and Chaotic Condensates in Multispecies Nonreciprocal Mixtures. PHYSICAL REVIEW LETTERS 2025;134:148301. [PMID: 40279578 DOI: 10.1103/physrevlett.134.148301] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/12/2024] [Revised: 10/25/2024] [Accepted: 02/25/2025] [Indexed: 04/27/2025]
3
Juretić D. Exploring the Evolution-Coupling Hypothesis: Do Enzymes' Performance Gains Correlate with Increased Dissipation? ENTROPY (BASEL, SWITZERLAND) 2025;27:365. [PMID: 40282600 PMCID: PMC12025749 DOI: 10.3390/e27040365] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2025] [Revised: 03/14/2025] [Accepted: 03/24/2025] [Indexed: 04/29/2025]
4
Li X, de Assis Souza R, Heinemann M. The rate of glucose metabolism sets the cell morphology across yeast strains and species. Curr Biol 2025;35:788-798.e4. [PMID: 39879976 DOI: 10.1016/j.cub.2024.12.039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2024] [Revised: 10/31/2024] [Accepted: 12/17/2024] [Indexed: 01/31/2025]
5
Yancheva Y, Kaya SG, Belyy A, Fraaije MW, Tych KM. Impact of Ligand-Induced Oligomer Dissociation on Enzyme Diffusion, Directly Observed at the Single-Molecule Level. NANO LETTERS 2025;25:2373-2380. [PMID: 39879145 PMCID: PMC11831976 DOI: 10.1021/acs.nanolett.4c05792] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/15/2024] [Revised: 01/20/2025] [Accepted: 01/24/2025] [Indexed: 01/31/2025]
6
Popović ME, Tadić V, Popović M. (R)evolution of Viruses: Introduction to biothermodynamics of viruses. Virology 2025;603:110319. [PMID: 39642612 DOI: 10.1016/j.virol.2024.110319] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2024] [Revised: 11/15/2024] [Accepted: 11/26/2024] [Indexed: 12/09/2024]
7
Perpelea A, Bahia FM, Xiberras J, Devanthi PVP, Branduardi P, Klein M, Nevoigt E. The physiology of an engineered Saccharomyces cerevisiae strain that carries both an improved glycerol-3-phosphate and the synthetic dihydroxyacetone pathway for glycerol utilization. FEMS Yeast Res 2025;25:foaf015. [PMID: 40158198 PMCID: PMC11974383 DOI: 10.1093/femsyr/foaf015] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2024] [Revised: 03/04/2025] [Accepted: 03/28/2025] [Indexed: 04/02/2025]  Open
8
Farahani RM. Neural differentiation in perspective: mitochondria as early programmers. Front Neurosci 2025;18:1529855. [PMID: 39844856 PMCID: PMC11751005 DOI: 10.3389/fnins.2024.1529855] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2024] [Accepted: 12/23/2024] [Indexed: 01/24/2025]  Open
9
Palme J, Li A, Springer M. The galactokinase enzyme of yeast senses metabolic flux to stabilize galactose pathway regulation. Nat Metab 2025;7:137-147. [PMID: 39762390 PMCID: PMC11774755 DOI: 10.1038/s42255-024-01181-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/27/2023] [Accepted: 11/18/2024] [Indexed: 01/30/2025]
10
Olavarria K, Sousa DZ. Thermodynamic tools for more efficient biotechnological processes: an example in poly-(3-hydroxybutyrate) production from carbon monoxide. Curr Opin Biotechnol 2024;90:103212. [PMID: 39357457 DOI: 10.1016/j.copbio.2024.103212] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2024] [Revised: 08/19/2024] [Accepted: 09/14/2024] [Indexed: 10/04/2024]
11
Sen P. Flux balance analysis of metabolic networks for efficient engineering of microbial cell factories. Biotechnol Genet Eng Rev 2024;40:3682-3715. [PMID: 36476223 DOI: 10.1080/02648725.2022.2152631] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2022] [Accepted: 11/16/2022] [Indexed: 12/14/2022]
12
Pfeuty B. Free-energy transduction mechanisms shape the flux space of metabolic networks. Biophys J 2024;123:3600-3611. [PMID: 39277793 PMCID: PMC11494513 DOI: 10.1016/j.bpj.2024.09.012] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2024] [Revised: 07/05/2024] [Accepted: 09/10/2024] [Indexed: 09/17/2024]  Open
13
Shaulson ED, Cohen AA, Picard M. The brain-body energy conservation model of aging. NATURE AGING 2024;4:1354-1371. [PMID: 39379694 DOI: 10.1038/s43587-024-00716-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Accepted: 09/04/2024] [Indexed: 10/10/2024]
14
Shen Y, Dinh HV, Cruz ER, Chen Z, Bartman CR, Xiao T, Call CM, Ryseck RP, Pratas J, Weilandt D, Baron H, Subramanian A, Fatma Z, Wu ZY, Dwaraknath S, Hendry JI, Tran VG, Yang L, Yoshikuni Y, Zhao H, Maranas CD, Wühr M, Rabinowitz JD. Mitochondrial ATP generation is more proteome efficient than glycolysis. Nat Chem Biol 2024;20:1123-1132. [PMID: 38448734 PMCID: PMC11925356 DOI: 10.1038/s41589-024-01571-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2023] [Accepted: 02/05/2024] [Indexed: 03/08/2024]
15
Prathyusha KR, Saha S, Golestanian R. Anomalous Fluctuations in a Droplet of Chemically Active Colloids or Enzymes. PHYSICAL REVIEW LETTERS 2024;133:058401. [PMID: 39159108 DOI: 10.1103/physrevlett.133.058401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/25/2024] [Accepted: 06/28/2024] [Indexed: 08/21/2024]
16
Nguyen V, Li Y, Lu T. Emergence of Orchestrated and Dynamic Metabolism of Saccharomyces cerevisiae. ACS Synth Biol 2024;13:1442-1453. [PMID: 38657170 PMCID: PMC11103795 DOI: 10.1021/acssynbio.3c00542] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/26/2024]
17
Hołyst R, Bubak G, Kalwarczyk T, Kwapiszewska K, Michalski J, Pilz M. Living Cell as a Self-Synchronized Chemical Reactor. J Phys Chem Lett 2024;15:3559-3570. [PMID: 38526849 PMCID: PMC11000238 DOI: 10.1021/acs.jpclett.4c00190] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2024] [Revised: 03/21/2024] [Accepted: 03/21/2024] [Indexed: 03/27/2024]
18
Voorsluijs V, Avanzini F, Falasco G, Esposito M, Skupin A. Calcium oscillations optimize the energetic efficiency of mitochondrial metabolism. iScience 2024;27:109078. [PMID: 38375217 PMCID: PMC10875125 DOI: 10.1016/j.isci.2024.109078] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/27/2023] [Revised: 12/26/2023] [Accepted: 01/26/2024] [Indexed: 02/21/2024]  Open
19
Ortega-Arzola E, Higgins PM, Cockell CS. The minimum energy required to build a cell. Sci Rep 2024;14:5267. [PMID: 38438463 PMCID: PMC11306549 DOI: 10.1038/s41598-024-54303-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2023] [Accepted: 02/11/2024] [Indexed: 03/06/2024]  Open
20
Ebenhöh O, Ebeling J, Meyer R, Pohlkotte F, Nies T. Microbial Pathway Thermodynamics: Stoichiometric Models Unveil Anabolic and Catabolic Processes. Life (Basel) 2024;14:247. [PMID: 38398756 PMCID: PMC10890395 DOI: 10.3390/life14020247] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/04/2023] [Revised: 01/29/2024] [Accepted: 02/05/2024] [Indexed: 02/25/2024]  Open
21
Joseph C, Zafeiropoulos H, Bernaerts K, Faust K. Predicting microbial interactions with approaches based on flux balance analysis: an evaluation. BMC Bioinformatics 2024;25:36. [PMID: 38262921 PMCID: PMC10804772 DOI: 10.1186/s12859-024-05651-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/23/2023] [Accepted: 01/11/2024] [Indexed: 01/25/2024]  Open
22
Trivellin C, Rugbjerg P, Olsson L. Performance and robustness analysis reveals phenotypic trade-offs in yeast. Life Sci Alliance 2024;7:e202302215. [PMID: 37903627 PMCID: PMC10618107 DOI: 10.26508/lsa.202302215] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2023] [Revised: 10/20/2023] [Accepted: 10/20/2023] [Indexed: 11/01/2023]  Open
23
Torello Pianale L, Caputo F, Olsson L. Four ways of implementing robustness quantification in strain characterisation. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2023;16:195. [PMID: 38115067 PMCID: PMC10729505 DOI: 10.1186/s13068-023-02445-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/06/2023] [Accepted: 12/05/2023] [Indexed: 12/21/2023]
24
Stern A, Fokra M, Sarvin B, Alrahem AA, Lee WD, Aizenshtein E, Sarvin N, Shlomi T. Inferring mitochondrial and cytosolic metabolism by coupling isotope tracing and deconvolution. Nat Commun 2023;14:7525. [PMID: 37980339 PMCID: PMC10657349 DOI: 10.1038/s41467-023-42824-z] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2021] [Accepted: 10/19/2023] [Indexed: 11/20/2023]  Open
25
Conte L, Gonella F, Giansanti A, Kleidon A, Romano A. Modeling cell populations metabolism and competition under maximum power constraints. PLoS Comput Biol 2023;19:e1011607. [PMID: 37939139 PMCID: PMC10659174 DOI: 10.1371/journal.pcbi.1011607] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2023] [Revised: 11/20/2023] [Accepted: 10/16/2023] [Indexed: 11/10/2023]  Open
26
Wendering P, Nikoloski Z. Model-driven insights into the effects of temperature on metabolism. Biotechnol Adv 2023;67:108203. [PMID: 37348662 DOI: 10.1016/j.biotechadv.2023.108203] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2023] [Revised: 05/22/2023] [Accepted: 06/18/2023] [Indexed: 06/24/2023]
27
Rosenberg AM, Saggar M, Monzel AS, Devine J, Rogu P, Limoges A, Junker A, Sandi C, Mosharov EV, Dumitriu D, Anacker C, Picard M. Brain mitochondrial diversity and network organization predict anxiety-like behavior in male mice. Nat Commun 2023;14:4726. [PMID: 37563104 PMCID: PMC10415311 DOI: 10.1038/s41467-023-39941-0] [Citation(s) in RCA: 29] [Impact Index Per Article: 14.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/23/2021] [Accepted: 07/04/2023] [Indexed: 08/12/2023]  Open
28
Yamagishi JF, Hatakeyama TS. Linear Response Theory of Evolved Metabolic Systems. PHYSICAL REVIEW LETTERS 2023;131:028401. [PMID: 37505963 DOI: 10.1103/physrevlett.131.028401] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Accepted: 06/06/2023] [Indexed: 07/30/2023]
29
Taha A, Patón M, Penas DR, Banga JR, Rodríguez J. Optimal evaluation of energy yield and driving force in microbial metabolic pathway variants. PLoS Comput Biol 2023;19:e1011264. [PMID: 37410779 DOI: 10.1371/journal.pcbi.1011264] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Accepted: 06/12/2023] [Indexed: 07/08/2023]  Open
30
Onesto V, Forciniti S, Alemanno F, Narayanankutty K, Chandra A, Prasad S, Azzariti A, Gigli G, Barra A, De Martino A, De Martino D, del Mercato LL. Probing Single-Cell Fermentation Fluxes and Exchange Networks via pH-Sensing Hybrid Nanofibers. ACS NANO 2023;17:3313-3323. [PMID: 36573897 PMCID: PMC9979640 DOI: 10.1021/acsnano.2c06114] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/21/2022] [Accepted: 12/19/2022] [Indexed: 05/31/2023]
31
Takhaveev V, Özsezen S, Smith EN, Zylstra A, Chaillet ML, Chen H, Papagiannakis A, Milias-Argeitis A, Heinemann M. Temporal segregation of biosynthetic processes is responsible for metabolic oscillations during the budding yeast cell cycle. Nat Metab 2023;5:294-313. [PMID: 36849832 PMCID: PMC9970877 DOI: 10.1038/s42255-023-00741-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Accepted: 01/10/2023] [Indexed: 03/01/2023]
32
Sevrin T, Strasser L, Ternet C, Junk P, Caffarini M, Prins S, D’Arcy C, Catozzi S, Oliviero G, Wynne K, Kiel C, Luthert PJ. Whole-cell energy modeling reveals quantitative changes of predicted energy flows in RAS mutant cancer cell lines. iScience 2023;26:105931. [PMID: 36711246 PMCID: PMC9874014 DOI: 10.1016/j.isci.2023.105931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 10/27/2022] [Accepted: 01/03/2023] [Indexed: 01/06/2023]  Open
33
Biothermodynamics of Viruses from Absolute Zero (1950) to Virothermodynamics (2022). Vaccines (Basel) 2022;10:vaccines10122112. [PMID: 36560522 PMCID: PMC9784531 DOI: 10.3390/vaccines10122112] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 12/06/2022] [Accepted: 12/08/2022] [Indexed: 12/14/2022]  Open
34
de Valk SC, Bouwmeester SE, de Hulster E, Mans R. Engineering proton-coupled hexose uptake in Saccharomyces cerevisiae for improved ethanol yield. BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS 2022;15:47. [PMID: 35524322 PMCID: PMC9077909 DOI: 10.1186/s13068-022-02145-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/11/2022] [Accepted: 04/16/2022] [Indexed: 11/28/2022]
35
Bobba-Alves N, Juster RP, Picard M. The energetic cost of allostasis and allostatic load. Psychoneuroendocrinology 2022;146:105951. [PMID: 36302295 PMCID: PMC10082134 DOI: 10.1016/j.psyneuen.2022.105951] [Citation(s) in RCA: 49] [Impact Index Per Article: 16.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/07/2022] [Revised: 10/05/2022] [Accepted: 10/06/2022] [Indexed: 11/06/2022]
36
The choice of the objective function in flux balance analysis is crucial for predicting replicative lifespans in yeast. PLoS One 2022;17:e0276112. [PMID: 36227951 PMCID: PMC9560524 DOI: 10.1371/journal.pone.0276112] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Accepted: 09/28/2022] [Indexed: 11/10/2022]  Open
37
Cotton MW, Golestanian R, Agudo-Canalejo J. Catalysis-Induced Phase Separation and Autoregulation of Enzymatic Activity. PHYSICAL REVIEW LETTERS 2022;129:158101. [PMID: 36269959 DOI: 10.1103/physrevlett.129.158101] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2022] [Accepted: 09/09/2022] [Indexed: 06/16/2023]
38
Janasch M, Crang N, Asplund-Samuelsson J, Sporre E, Bruch M, Gynnå A, Jahn M, Hudson EP. Thermodynamic limitations of PHB production from formate and fructose in Cupriavidus necator. Metab Eng 2022;73:256-269. [PMID: 35987434 DOI: 10.1016/j.ymben.2022.08.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2022] [Revised: 06/10/2022] [Accepted: 08/06/2022] [Indexed: 11/30/2022]
39
Wachtel A, Rao R, Esposito M. Free-Energy Transduction in Chemical Reaction Networks: from Enzymes to Metabolism. J Chem Phys 2022;157:024109. [DOI: 10.1063/5.0091035] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
40
Chenna S, Koopman WJH, Prehn JHM, Connolly NMC. Mechanisms and mathematical modelling of ROS production by the mitochondrial electron transport chain. Am J Physiol Cell Physiol 2022;323:C69-C83. [PMID: 35613354 DOI: 10.1152/ajpcell.00455.2021] [Citation(s) in RCA: 39] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
41
Vujovic F, Hunter N, Farahani RM. Notch ankyrin domain: evolutionary rise of a thermodynamic sensor. Cell Commun Signal 2022;20:66. [PMID: 35585601 PMCID: PMC9118731 DOI: 10.1186/s12964-022-00886-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2022] [Accepted: 04/21/2022] [Indexed: 12/19/2022]  Open

Video abstract

  • Filip Vujovic
    • IDR/Westmead Institute for Medical Research, Westmead, NSW, 2145, Australia.,School of Medical Sciences, Faculty of Medicine and Health, University of Sydney, Sydney, NSW, 2006, Australia
  • Neil Hunter
    • IDR/Westmead Institute for Medical Research, Westmead, NSW, 2145, Australia
  • Ramin M Farahani
    • IDR/Westmead Institute for Medical Research, Westmead, NSW, 2145, Australia. .,School of Medical Sciences, Faculty of Medicine and Health, University of Sydney, Sydney, NSW, 2006, Australia.
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Losa J, Leupold S, Alonso‐Martinez D, Vainikka P, Thallmair S, Tych KM, Marrink SJ, Heinemann M. Perspective: a stirring role for metabolism in cells. Mol Syst Biol 2022;18:e10822. [PMID: 35362256 PMCID: PMC8972047 DOI: 10.15252/msb.202110822] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2021] [Revised: 03/05/2022] [Accepted: 03/09/2022] [Indexed: 11/24/2022]  Open
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Developmental energetics: Energy expenditure, budgets and metabolism during animal embryogenesis. Semin Cell Dev Biol 2022;138:83-93. [PMID: 35317962 DOI: 10.1016/j.semcdb.2022.03.009] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2021] [Revised: 02/07/2022] [Accepted: 03/05/2022] [Indexed: 11/22/2022]
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Euler C, Mahadevan R. On the design principles of metabolic flux sensing. Biophys J 2022;121:237-247. [PMID: 34951981 PMCID: PMC8790210 DOI: 10.1016/j.bpj.2021.12.022] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2021] [Revised: 10/01/2021] [Accepted: 12/16/2021] [Indexed: 01/21/2023]  Open
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Taymaz-Nikerel H, Lara AR. Vitreoscilla Haemoglobin: A Tool to Reduce Overflow Metabolism. Microorganisms 2021;10:microorganisms10010043. [PMID: 35056491 PMCID: PMC8779101 DOI: 10.3390/microorganisms10010043] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2021] [Revised: 12/18/2021] [Accepted: 12/20/2021] [Indexed: 11/26/2022]  Open
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Cook J, Pawar S, Endres RG. Thermodynamic constraints on the assembly and diversity of microbial ecosystems are different near to and far from equilibrium. PLoS Comput Biol 2021;17:e1009643. [PMID: 34860834 PMCID: PMC8673627 DOI: 10.1371/journal.pcbi.1009643] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/01/2021] [Revised: 12/15/2021] [Accepted: 11/15/2021] [Indexed: 11/30/2022]  Open
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Beber ME, Gollub MG, Mozaffari D, Shebek KM, Flamholz AI, Milo R, Noor E. eQuilibrator 3.0: a database solution for thermodynamic constant estimation. Nucleic Acids Res 2021;50:D603-D609. [PMID: 34850162 PMCID: PMC8728285 DOI: 10.1093/nar/gkab1106] [Citation(s) in RCA: 78] [Impact Index Per Article: 19.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2021] [Revised: 10/16/2021] [Accepted: 10/21/2021] [Indexed: 11/29/2022]  Open
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Energetic scaling in microbial growth. Proc Natl Acad Sci U S A 2021;118:2107668118. [PMID: 34799445 DOI: 10.1073/pnas.2107668118] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 10/04/2021] [Indexed: 11/18/2022]  Open
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Santiago E, Moreno DF, Acar M. Modeling aging and its impact on cellular function and organismal behavior. Exp Gerontol 2021;155:111577. [PMID: 34582969 PMCID: PMC8560568 DOI: 10.1016/j.exger.2021.111577] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2021] [Revised: 09/18/2021] [Accepted: 09/22/2021] [Indexed: 01/22/2023]
50
Yamagishi JF, Hatakeyama TS. Microeconomics of Metabolism: The Warburg Effect as Giffen Behaviour. Bull Math Biol 2021;83:120. [PMID: 34718881 PMCID: PMC8558188 DOI: 10.1007/s11538-021-00952-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Accepted: 10/05/2021] [Indexed: 12/12/2022]
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