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dc.contributor.authorBougouffa, Salim
dc.contributor.authorRadovanovic, A.
dc.contributor.authorEssack, M.
dc.contributor.authorBajic, Vladimir B.
dc.date.accessioned2015-04-06T08:43:36Z
dc.date.available2015-04-06T08:43:36Z
dc.date.issued2014-10-09
dc.identifier.citationDEOP: a database on osmoprotectants and associated pathways 2014, 2014 (0):bau100 Database
dc.identifier.issn1758-0463
dc.identifier.pmid25326239
dc.identifier.doi10.1093/database/bau100
dc.identifier.urihttp://hdl.handle.net/10754/348510
dc.description.abstractMicroorganisms are known to counteract salt stress through salt influx or by the accumulation of osmoprotectants (also called compatible solutes). Understanding the pathways that synthesize and/or breakdown these osmoprotectants is of interest to studies of crops halotolerance and to biotechnology applications that use microbes as cell factories for production of biomass or commercial chemicals. To facilitate the exploration of osmoprotectants, we have developed the first online resource, ‘Dragon Explorer of Osmoprotection associated Pathways’ (DEOP) that gathers and presents curated information about osmoprotectants, complemented by information about reactions and pathways that use or affect them. A combined total of 141 compounds were confirmed osmoprotectants, which were matched to 1883 reactions and 834 pathways. DEOP can also be used to map genes or microbial genomes to potential osmoprotection-associated pathways, and thus link genes and genomes to other associated osmoprotection information. Moreover, DEOP provides a text-mining utility to search deeper into the scientific literature for supporting evidence or for new associations of osmoprotectants to pathways, reactions, enzymes, genes or organisms. Two case studies are provided to demonstrate the usefulness of DEOP. The system can be accessed at.
dc.publisherOxford University Press (OUP)
dc.relation.urlhttp://database.oxfordjournals.org/cgi/doi/10.1093/database/bau100
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.titleDEOP: a database on osmoprotectants and associated pathways
dc.typeArticle
dc.contributor.departmentApplied Mathematics and Computational Science Program
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.contributor.departmentComputer, Electrical and Mathematical Sciences and Engineering (CEMSE) Division
dc.identifier.journalDatabase
dc.identifier.pmcidPMC4201361
dc.eprint.versionPublisher's Version/PDF
kaust.personBougouffa, Salim
kaust.personBajic, Vladimir B.
refterms.dateFOA2018-06-13T10:52:23Z
dc.date.published-online2014-10-09
dc.date.published-print2014-01-01


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