Comparative genome-scale metabolic modeling of actinomycetes: The topology of essential core metabolism

Mohammad Tauqeer Alam, Marnix H. Medema, Eriko Takano, Rainer Breitling

Research output: Contribution to journalArticlepeer-review

28 Citations (Scopus)

Abstract

Actinomycetes are highly important bacteria. On one hand, some of them cause severe human and plant diseases, on the other hand, many species are known for their ability to produce antibiotics. Here we report the results of a comparative analysis of genome-scale metabolic models of 37 species of actinomycetes. Based on in silico knockouts we generated topological and genomic maps for each organism. Combining the collection of genome-wide models, we constructed a global enzyme association network to identify both a conserved "core network" and an "essential core network" of the entire group. As has been reported for low-degree metabolites in several organisms, low-degree enzymes (in linear pathways) turn out to be generally more essential than high-degree enzymes (in metabolic hubs).

Original languageEnglish
Pages (from-to)2389-2394
Number of pages6
JournalFEBS Letters
Volume585
Issue number14
DOIs
Publication statusPublished - Jul 21 2011
Externally publishedYes

Keywords

  • Constraint-based metabolic model
  • Flux balance analysis
  • Secondary metabolite
  • Streptomyces
  • Systems biology

ASJC Scopus subject areas

  • Biophysics
  • Structural Biology
  • Biochemistry
  • Molecular Biology
  • Genetics
  • Cell Biology

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