Dataset Information

Zymomonas ED Pathway

ABSTRACT:

Mathematical	Definition			symbol/abbreviation												Mathematical symbols								Keq		Equilibrium constant			Ki		Inhibition constant			Km		Affinity constant			v		Predicted enzyme activities			Vf		Maximal enzyme activities under saturating substrate and activator					conditions, and in the absence of inhibitors			h		Hill coefficientk		Rate constant							Abbreviations								ACET		Acetaldehyde			ADH		Alcohol dehydrogenase			AK		Adenylate kinase			ATPcons		ATP consuming reactions			bPG		1,3-bisphosphoglycerate			ENO		Enolase		 	ETOHcy		Cytoplasmic ethanol 			ETOHex		Extracellular ethanol			ETOHexp		Ethanol transport			GAP		Glyceraldehyde 3-phosphate 			GAPD		Glyceraldehyde 3-phosphate dehydrogenase 			GF		Glucose facilitator			GK		Glucokinase 			GLUCcy		Cytoplasmic glucose			GLUCex		Extracellular glucose			GLUC6P		Glucose 6-phosphate			GPD		Glucose 6-phosphate dehydrogenase			KDPG		2-keto-3-deoxy-6-phosphogluconate			KDPGA		2-keto-3-deoxy-6-phosphogluconate aldolase			PDC		Pyruvate decarboxylase			PEP		Phosphoenolpyruvate			PGD		6-phosphogluconate dehydratase 			PGK		3-phosphoglycerate kinase			PGL		6-phosphogluconolactonase			PGLACTON		6-phosphogluconolactone			PGLUCONATE	6-phosphogluconate			PGM		Phosphoglycerate mutase			P3G		3-phosphoglycerate			P2G		2-phosphoglycerate			PYK		Pyruvate kinase			PYR		Pyruvate

SUBMITTER: ULDIS Kalnenieks

PROVIDER: MODEL2008060001 | biostudies-other |

SECONDARY ACCESSION(S): GO:0019642

REPOSITORIES: biostudies-other

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Publications

Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry.

Teusink B B Passarge J J Reijenga C A CA Esgalhado E E van der Weijden C C CC Schepper M M Walsh M C MC Bakker B M BM van Dam K K Westerhoff H V HV Snoep J L JL

European journal of biochemistry 20000901 17

This paper examines whether the in vivo behavior of yeast glycolysis can be understood in terms of the in vitro kinetic properties of the constituent enzymes. In nongrowing, anaerobic, compressed Saccharomyces cerevisiae the values of the kinetic parameters of most glycolytic enzymes were determined. For the other enzymes appropriate literature values were collected. By inserting these values into a kinetic model for glycolysis, fluxes and metabolites were calculated. Under the same conditions f ...[more]

PMID: 10951190

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Project description:Zymomonas mobilis ZM4 produces near theoretical yields of ethanol with high specific productivity and recombinant strains are able to ferment both C-5 and C-6 sugars. However, the genetic and physiological basis of the ZM4 response to various industrially-relevant stresses is poorly understood. In this study, the dynamics of ZM4 oxygen stress responses were elucidated by characterizing the transcriptomic and metabolomic profiles of aerobic and anaerobic fermentations using whole-genome microarray analysis and gas chromatography-mass spectrometry. In the absence of oxygen, ZM4 consumed glucose more rapidly, had a higher growth rate, and ethanol was the major end-product. Under aerobic conditions, much less ethanol was observed with other end-products produced, including acetate, lactate, and acetoin. In the early exponential phase, no genes were detected as being significantly differentially expressed between aerobic and anaerobic conditions via microarray analysis. However, microarray analysis of the stationary phase cultures revealed that 166 genes were significantly differentially expressed by more than two-fold. Quantitative-PCR validated the expression values for seventeen genes from different categories of stationary phase microarray data. Transcripts for Entner-Doudoroff pathway genes and gene pdc, encoding a key enzyme leading to the ethanol production, were at least 30-fold more abundant under anaerobic conditions at stationary phase based on quantitative-PCR results. Expression of stress response genes was found to be greater under oxygen stress conditions. GC-MS analysis of stationary phase intracellular metabolites indicated that ZM4 under anaerobic conditions contained lower levels of amino acids, glucose and ED pathway intermediates, whereas metabolites such as ribitol, trehalose, myristic acid, glyceric acid, glucose 6-phosphate, mannose 6-phosphate, and 4-hydroxybutanoic acid were more abundant than under aerobic conditions. Transcriptomic and metabolomic data were consistent with faster glucose consumption and greater ethanol production under anaerobic conditions and suggested gene targets for deletion and improved fermentation. Keywords: Time course/ Stress Response

Dataset Information

Zymomonas ED Pathway

Publications

Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry.

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