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Comparative genome‐scale metabolic modeling of actinomycetes: The topology of essential core metabolism
Author(s) -
Alam Mohammad Tauqeer,
Medema Marnix H.,
Takano Eriko,
Breitling Rainer
Publication year - 2011
Publication title -
febs letters
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.593
H-Index - 257
eISSN - 1873-3468
pISSN - 0014-5793
DOI - 10.1016/j.febslet.2011.06.014
Subject(s) - in silico , metabolic network , computational biology , genome , biology , organism , model organism , genetics , gene
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).