Generation and Evaluation of a Genome-Scale Metabolic Network Model of Synechococcus elongatus PCC7942

Metabolites

Julián Triana¹  Arnau Montagud†³  Maria Siurana³  David Fuente³  Arantxa Urchuegu໚⁵  Daniel Gamermann⁴  Javier Torres²  Jose Tena²  Pedro Fernández de Córdoba³ 

[1]Universidad de Pinar del Río “Hermanos Saíz Montes de Oca”, Pinar del Río 20100, Cuba

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[3]Instituto Universitario de Medio Ambiente y Ciencia Marina, Universidad Católica de Valencia “San Vicente Mártir”, València 46001, Spain

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[5]Instituto Universitario de Matemática Pura y Aplicada, Universitat Politècnica de València, València 46022, Spain

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[7]Instituto de Física, Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre 91501-970, Brazil

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[9]Biozentrum, Universität Basel, 4056 Basel, Switzerland

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关键词: genome-scale metabolic network reconstruction;    systems biology;    metabolic pathways;    flux balance analysis;    biological databases;   

DOI  :  10.3390/metabo4030680

来源: mdpi

【 摘 要 】

The reconstruction of genome-scale metabolic models and their applications represent a great advantage of systems biology. Through their use as metabolic flux simulation models, production of industrially-interesting metabolites can be predicted. Due to the growing number of studies of metabolic models driven by the increasing genomic sequencing projects, it is important to conceptualize steps of reconstruction and analysis. We have focused our work in the cyanobacterium Synechococcus elongatus PCC7942, for which several analyses and insights are unveiled. A comprehensive approach has been used, which can be of interest to lead the process of manual curation and genome-scale metabolic analysis. The final model, iSyf715 includes 851 reactions and 838 metabolites. A biomass equation, which encompasses elementary building blocks to allow cell growth, is also included. The applicability of the model is finally demonstrated by simulating autotrophic growth conditions of Synechococcus elongatus PCC7942.

【 授权许可】

CC BY   
© 2014 by the authors; licensee MDPI, Basel, Switzerland.