About: Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution

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About: Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution Goto Sponge NotDistinct Permalink

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rdf:type	skos:Concept http://linked.opendata.cz/ontology/domain/vavai/Vysledek
Description	Cellular metabolism, the interconversion of small molecules by chemical reactions, is a tightly coordinated process that requires integration of diverse environmental and intracellular cues. While for many organisms the topology of the network of metabolic reactions is increasingly known, the regulatory principles that shape the network's adaptation to diverse and changing environments remain largely elusive. To investigate the principles of metabolic adaptation and regulation in metabolic pathways, we propose a computational approach based on in-silico evolution. Rather than analyzing existing regulatory schemes, we let a population of minimal, prototypical metabolic cells evolve rate constants and appropriate regulatory schemes that allow for optimal growth in static and fluctuating environments. Applying our approach to a small, but already sufficiently complex, minimal system reveals intricate transitions between metabolic modes. These results have implications for trade-offs in resource allocation. Going from static to varying environments, we show that for fluctuating nutrient availability, active metabolic regulation results in a significantly increased overall rate of metabolism. Cellular metabolism, the interconversion of small molecules by chemical reactions, is a tightly coordinated process that requires integration of diverse environmental and intracellular cues. While for many organisms the topology of the network of metabolic reactions is increasingly known, the regulatory principles that shape the network's adaptation to diverse and changing environments remain largely elusive. To investigate the principles of metabolic adaptation and regulation in metabolic pathways, we propose a computational approach based on in-silico evolution. Rather than analyzing existing regulatory schemes, we let a population of minimal, prototypical metabolic cells evolve rate constants and appropriate regulatory schemes that allow for optimal growth in static and fluctuating environments. Applying our approach to a small, but already sufficiently complex, minimal system reveals intricate transitions between metabolic modes. These results have implications for trade-offs in resource allocation. Going from static to varying environments, we show that for fluctuating nutrient availability, active metabolic regulation results in a significantly increased overall rate of metabolism. (en)
Title	Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution (en)
skos:prefLabel	Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution Elucidating the adaptation and temporal coordination of metabolic pathways using in-silico evolution (en)
skos:notation	RIV/67179843:_____/14:00442496!RIV15-AV0-67179843
http://linked.open...avai/riv/aktivita	I P
http://linked.open...avai/riv/aktivity	I, P(EE2.3.20.0256)
http://linked.open...iv/cisloPeriodika	mar
http://linked.open...vai/riv/dodaniDat	2015
http://linked.open...aciTvurceVysledku	Steuer, Ralf Müller, Stefan
http://linked.open.../riv/druhVysledku	J - Článek v odborném periodiku
http://linked.open...iv/duvernostUdaju	S - Úplné a pravdivé údaje nepodléhající ochraně podle zvláštních právních předpisů
http://linked.open...titaPredkladatele	Centrum výzkumu globální změny AV ČR, v. v. i.
http://linked.open...dnocenehoVysledku	14359
http://linked.open...ai/riv/idVysledku	RIV/67179843:_____/14:00442496
http://linked.open...riv/jazykVysledku	eng - angličtina
http://linked.open.../riv/klicovaSlova	evolutionary algorithms; flux-balance analysis; metabolic oscillations; metabolism; systems biology (en)
http://linked.open.../riv/klicoveSlovo	flux-balance analysis metabolic oscillations evolutionary algorithms systems biology metabolism
http://linked.open...odStatuVydavatele	IE - Irsko
http://linked.open...ontrolniKodProRIV	[12B965541B90]
http://linked.open...i/riv/nazevZdroje	Biosystems
http://linked.open...in/vavai/riv/obor	EI
http://linked.open...ichTvurcuVysledku	2 (xsd:int)
http://linked.open...cetTvurcuVysledku	4 (xsd:int)
http://linked.open...vavai/riv/projekt	Local team and international consortium for computational modelling of a cyanobacterial cell
http://linked.open...UplatneniVysledku	2014
http://linked.open...v/svazekPeriodika	117
http://linked.open...iv/tvurceVysledku	Steuer, Ralf Müller, Stefan Gottstein, W. Herzel, H.
http://linked.open...ain/vavai/riv/wos	000333873000008
issn	0303-2647
number of pages	9 (xsd:int)
http://bibframe.org/vocab/doi	10.1016/j.biosystems.2013.12.006

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