Reference : MediaDB: A Database of Microbial Growth Conditions in Defined Media
Scientific journals : Article
Life sciences : Multidisciplinary, general & others
http://hdl.handle.net/10993/17599
MediaDB: A Database of Microbial Growth Conditions in Defined Media
English
Richards, Matthew A. []
Cassen, Victor []
Heavner, Benjamin D. []
Ajami, Nassim E. []
HerrMann, Andrea []
Simeonidis, Vangelis mailto [University of Luxembourg > Luxembourg Centre for Systems Biomedicine (LCSB) > >]
Price, Nathan D. []
6-Aug-2014
PLoS ONE
Public Library of Science
9
8
e103548
Yes (verified by ORBilu)
International
1932-6203
San Franscisco
CA
[en] Isolating pure microbial cultures and cultivating them in the laboratory on defined media is used to more fully characterize the metabolism and physiology of organisms. However, identifying an appropriate growth medium for a novel isolate remains a challenging task. Even organisms with sequenced and annotated genomes can be difficult to grow, despite our ability to build genome-scale metabolic networks that connect genomic data with metabolic function. The scientific literature is scattered with information about defined growth media used successfully for cultivating a wide variety of organisms, but to date there exists no centralized repository to inform efforts to cultivate less characterized organisms by bridging the gap between genomic data and compound composition for growth media. Here we present MediaDB, a manually curated database of defined media that have been used for cultivating organisms with sequenced genomes, with an emphasis on organisms with metabolic network models. The database is accessible online, can be queried by keyword searches or downloaded in its entirety, and can generate exportable individual media formulation files. The data assembled in MediaDB facilitate comparative studies of organism growth media, serve as a starting point for formulating novel growth media, and contribute to formulating media for in silico investigation of metabolic networks. MediaDB is freely available for public use at https://mediadb.systemsbiology.net.
Luxembourg Centre for Systems Biomedicine (LCSB): Experimental Neurobiology (Balling Group)
Researchers
http://hdl.handle.net/10993/17599
10.1371/journal.pone.0103548
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0103548

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