{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,28]],"date-time":"2026-03-28T04:21:12Z","timestamp":1774671672452,"version":"3.50.1"},"reference-count":59,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2016,12,5]],"date-time":"2016-12-05T00:00:00Z","timestamp":1480896000000},"content-version":"vor","delay-in-days":1069,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2014,1,1]]},"DOI":"10.1093\/database\/bau100","type":"journal-article","created":{"date-parts":[[2014,10,18]],"date-time":"2014-10-18T04:56:49Z","timestamp":1413608209000},"source":"Crossref","is-referenced-by-count":34,"title":["DEOP: a database on osmoprotectants and associated pathways"],"prefix":"10.1093","volume":"2014","author":[{"given":"Salim","family":"Bougouffa","sequence":"first","affiliation":[{"name":"King Abdullah University of Science and Technology (KAUST); Computational Bioscience Research Centre (CBRC); Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE); Thuwal, Jeddah, 23955-6900, Saudi Arabia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Aleksandar","family":"Radovanovic","sequence":"additional","affiliation":[{"name":"King Abdullah University of Science and Technology (KAUST); Computational Bioscience Research Centre (CBRC); Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE); Thuwal, Jeddah, 23955-6900, Saudi Arabia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Magbubah","family":"Essack","sequence":"additional","affiliation":[{"name":"King Abdullah University of Science and Technology (KAUST); Computational Bioscience Research Centre (CBRC); Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE); Thuwal, Jeddah, 23955-6900, Saudi Arabia"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Vladimir B.","family":"Bajic","sequence":"additional","affiliation":[{"name":"King Abdullah University of Science and Technology (KAUST); Computational Bioscience Research Centre (CBRC); Computer, Electrical and Mathematical Sciences and Engineering Division (CEMSE); Thuwal, Jeddah, 23955-6900, Saudi Arabia"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2014,10,9]]},"reference":[{"key":"key\n\t\t\t\t20180618191009_bau100-B1","doi-asserted-by":"crossref","first-page":"3591","DOI":"10.1128\/AEM.64.10.3591-3598.1998","article-title":"Effects of temperature, salinity, and medium composition on compatible solute accumulation by thermococcus spp","volume":"64","author":"Lamosa","year":"1998","journal-title":"Appl. Environm. Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B2","doi-asserted-by":"crossref","first-page":"49","DOI":"10.1111\/j.1574-6976.2002.tb00598.x","article-title":"Bacterial osmoadaptation: the role of osmolytes in bacterial stress and virulence","volume":"26","author":"Sleator","year":"2002","journal-title":"FEMS Microbiol. Rev."},{"key":"key\n\t\t\t\t20180618191009_bau100-B3","first-page":"273","article-title":"Osmoadaptation in bacteria","volume-title":"Advances in Microbial Physiology","author":"Galinski","year":"1995"},{"key":"key\n\t\t\t\t20180618191009_bau100-B4","doi-asserted-by":"crossref","first-page":"101","DOI":"10.1002\/jobm.201100288","article-title":"Osmotic stress adaptations in rhizobacteria","volume":"53","author":"Paul","year":"2013","journal-title":"J. Basic Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B5","doi-asserted-by":"crossref","first-page":"211","DOI":"10.1016\/S0923-2508(98)80081-8","article-title":"Carnitine acts as a compatible solute in Brevibacterium linens","volume":"149","author":"Jebbar","year":"1998","journal-title":"Res. Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B6","doi-asserted-by":"crossref","first-page":"319","DOI":"10.1007\/s002030050649","article-title":"Uptake and synthesis of compatible solutes as microbial stress responses to high-osmolality environments","volume":"170","author":"Kempf","year":"1998","journal-title":"Arch. Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B7","doi-asserted-by":"crossref","first-page":"1095","DOI":"10.1093\/oxfordjournals.pcp.a029093","article-title":"Regulation of levels of proline as an osmolyte in plants under water stress","volume":"38","author":"Yoshiba","year":"1997","journal-title":"Plant Cell Physiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B8","doi-asserted-by":"crossref","first-page":"171","DOI":"10.1016\/S0168-1605(00)00192-6","article-title":"Is the accumulation of osmoprotectant the unique mechanism involved in bacterial osmoprotection? Int","volume":"55","author":"Gouffi","year":"2000","journal-title":"J. Food Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B9","doi-asserted-by":"crossref","first-page":"3148","DOI":"10.1104\/pp.104.042606","article-title":"Galactinol synthase1. A novel heat shock factor target gene responsible for heat-induced synthesis of raffinose family oligosaccharides in Arabidopsis","volume":"136","author":"Panikulangara","year":"2004","journal-title":"Plant Physiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B10","doi-asserted-by":"crossref","first-page":"273","DOI":"10.33073\/pjm-2013-035","article-title":"Salt stress tolerance of methylotrophic bacteria Methylophilus sp. and Methylobacterium sp. isolated from coal mine spoils","volume":"62","author":"Giri","year":"2013","journal-title":"Pol. J. Microbiol"},{"key":"key\n\t\t\t\t20180618191009_bau100-B11","doi-asserted-by":"crossref","first-page":"117","DOI":"10.1007\/BFb0102291","article-title":"An overview of the role and diversity of compatible solutes in bacteria and archaea","volume-title":"Biotechnology of Extremophiles","author":"Costa","year":"1998"},{"key":"key\n\t\t\t\t20180618191009_bau100-B12","first-page":"1516","article-title":"Halophilic bacteria and their compatible solutes - osmoregulation and potential applications","volume":"100","author":"Shivanand","year":"2011","journal-title":"Curr. Sci. India"},{"key":"key\n\t\t\t\t20180618191009_bau100-B13","doi-asserted-by":"crossref","first-page":"511","DOI":"10.1134\/S0026261707050013","article-title":"Osmoadaptation of haloalkaliphilic bacteria: role of osmoregulators and their possible practical application","volume":"76","author":"Detkova","year":"2007","journal-title":"Microbiology"},{"key":"key\n\t\t\t\t20180618191009_bau100-B14","doi-asserted-by":"crossref","first-page":"94","DOI":"10.1071\/EN06016","article-title":"Osmoregulation in bacteria: compatible solute accumulation and osmosensing","volume":"3","author":"Kunte","year":"2006","journal-title":"Environ. Chem."},{"key":"key\n\t\t\t\t20180618191009_bau100-B15","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1186\/1746-1448-1-5","article-title":"Organic compatible solutes of halotolerant and halophilic microorganisms","volume":"1","author":"Roberts","year":"2005","journal-title":"Saline Systems"},{"key":"key\n\t\t\t\t20180618191009_bau100-B16","doi-asserted-by":"crossref","first-page":"1214","DOI":"10.1126\/science.7112124","article-title":"Living with water stress: evolution of osmolyte systems","volume":"217","author":"Yancey","year":"1982","journal-title":"Science"},{"key":"key\n\t\t\t\t20180618191009_bau100-B17","volume-title":"Microbiology of Extreme Environments and its Potential for Biotechnology","author":"Da Costa","year":"1989"},{"key":"key\n\t\t\t\t20180618191009_bau100-B18","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4020-9065-3","volume-title":"Salinity and Water Stress: Improving Crop Efficiency","author":"Ashraf","year":"2009"},{"key":"key\n\t\t\t\t20180618191009_bau100-B19","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/1746-1448-6-12","article-title":"HaloWeb: the haloarchaeal genomes database","volume":"6","author":"DasSarma","year":"2010","journal-title":"Saline Systems"},{"key":"key\n\t\t\t\t20180618191009_bau100-B20","first-page":"976","article-title":"HaloBase: development of database system for halophilic bacteria and archaea with respect to proteomics, genomics & other molecular traits","volume":"70","author":"Ukani","year":"2011","journal-title":"J. Sci. Ind. Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B21","doi-asserted-by":"crossref","first-page":"535","DOI":"10.6026\/97320630008535","article-title":"Actinobase: database on molecular diversity, phylogeny and biocatalytic potential of salt tolerant alkaliphilic actinomycetes","volume":"8","author":"Sharma","year":"2012","journal-title":"Bioinformation"},{"key":"key\n\t\t\t\t20180618191009_bau100-B22","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1093\/nar\/27.1.29","article-title":"KEGG: kyoto encyclopedia of genes and genomes","volume":"27","author":"Ogata","year":"1999","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B23","doi-asserted-by":"crossref","first-page":"D438","DOI":"10.1093\/nar\/gkh100","article-title":"MetaCyc: a multiorganism database of metabolic pathways and enzymes","volume":"32","author":"Krieger","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B24","doi-asserted-by":"crossref","first-page":"D492","DOI":"10.1093\/nar\/gkp858","article-title":"The NCBI BioSystems database","volume":"38","author":"Geer","year":"2010","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B25","doi-asserted-by":"crossref","first-page":"266","DOI":"10.1038\/nchembio.1437","article-title":"Ubiquinone accumulation improves osmotic-stress tolerance in Escherichia coli","volume":"10","author":"Sevin","year":"2014","journal-title":"Nat. Chem. Biol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B26","doi-asserted-by":"crossref","first-page":"D5","DOI":"10.1093\/nar\/gkl1031","article-title":"Database resources of the national center for biotechnology information","volume":"35","author":"Wheeler","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B27","doi-asserted-by":"crossref","first-page":"D115","DOI":"10.1093\/nar\/gkh131","article-title":"UniProt: the universal protein knowledgebase","volume":"32","author":"Apweiler","year":"2004","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B28","doi-asserted-by":"crossref","first-page":"73","DOI":"10.1093\/nar\/26.1.73","article-title":"SGD: Saccharomyces genome database","volume":"26","author":"Cherry","year":"1998","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B29","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1007\/s10142-002-0077-z","article-title":"TAIR: a resource for integrated Arabidopsis data","volume":"2","author":"Garcia-Hernandez","year":"2002","journal-title":"Funct. Integr. Genomics"},{"key":"key\n\t\t\t\t20180618191009_bau100-B30","doi-asserted-by":"crossref","first-page":"68","DOI":"10.1093\/nar\/gkg091","article-title":"ArrayExpress\u2014a public repository for microarray gene expression data at the EBI","volume":"31","author":"Brazma","year":"2003","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B31","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1093\/nar\/28.1.60","article-title":"EcoGene: a genome sequence database for Escherichia coli K-12","volume":"28","author":"Rudd","year":"2000","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B32","doi-asserted-by":"crossref","first-page":"D469","DOI":"10.1093\/nar\/gkm1042","article-title":"GenoList: an integrated environment for comparative analysis of microbial genomes","volume":"36","author":"Lechat","year":"2008","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B33","doi-asserted-by":"crossref","first-page":"11","DOI":"10.1186\/1758-2946-5-11","article-title":"Dragon exploration system on marine sponge compounds interactions","volume":"5","author":"Sagar","year":"2013","journal-title":"J. Cheminform."},{"key":"key\n\t\t\t\t20180618191009_bau100-B34","author":"Garrett","year":"2005"},{"key":"key\n\t\t\t\t20180618191009_bau100-B35","author":"Foundation","year":"2005\u20132014"},{"key":"key\n\t\t\t\t20180618191009_bau100-B36","author":"Group","year":"1996\u20132014"},{"key":"key\n\t\t\t\t20180618191009_bau100-B37","author":"Jardine","year":"2008\u20132014"},{"key":"key\n\t\t\t\t20180618191009_bau100-B38","doi-asserted-by":"crossref","first-page":"1464","DOI":"10.1109\/5.58325","article-title":"The self-organizing map","volume":"78","author":"Kohonen","year":"1990","journal-title":"Proc. IEEE"},{"key":"key\n\t\t\t\t20180618191009_bau100-B39","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1007\/BF00337288","article-title":"Self-organized formation of topologically correct feature maps","volume":"43","author":"Kohonen","year":"1982","journal-title":"Biol. Cybern."},{"key":"key\n\t\t\t\t20180618191009_bau100-B40"},{"key":"key\n\t\t\t\t20180618191009_bau100-B41","doi-asserted-by":"crossref","first-page":"321","DOI":"10.1016\/j.jsb.2013.09.015","article-title":"Xmipp 3.0: an improved software suite for image processing in electron microscopy","volume":"184","author":"de la Rosa-Trev\u00edn","year":"2013","journal-title":"J. Struct Biol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B42","doi-asserted-by":"crossref","first-page":"7","DOI":"10.1353\/pbm.1986.0087","article-title":"Fish oil, Raynaud's syndrome, and undiscovered public knowledge","volume":"30","author":"Swanson","year":"1986","journal-title":"Perspect. Biol. Med."},{"key":"key\n\t\t\t\t20180618191009_bau100-B43","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1023\/B:DAMI.0000005258.31418.83","article-title":"Mining frequent patterns without candidate generation: a frequent-pattern tree approach","volume":"8","author":"Han","year":"2004","journal-title":"Data Min. Knowl. Disc"},{"key":"key\n\t\t\t\t20180618191009_bau100-B44","doi-asserted-by":"crossref","first-page":"180","DOI":"10.1007\/978-3-642-25856-5_14","article-title":"Mining top-K sequential rules","volume-title":"Advanced Data Mining and Applications","author":"Fournier-Viger","year":"2011"},{"key":"key\n\t\t\t\t20180618191009_bau100-B45","author":"Fournier-Viger","year":"2013"},{"key":"key\n\t\t\t\t20180618191009_bau100-B46","doi-asserted-by":"crossref","first-page":"W766","DOI":"10.1093\/nar\/gki422","article-title":"MRS: a fast and compact retrieval system for biological data","volume":"33","author":"Hekkelman","year":"2005","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B47","doi-asserted-by":"crossref","first-page":"255","DOI":"10.1002\/bmb.2006.494034042644","article-title":"Biomolecules in the computer: Jmol to the rescue","volume":"34","author":"Herraez","year":"2006","journal-title":"Biochem. Mol. Biol. Educ"},{"key":"key\n\t\t\t\t20180618191009_bau100-B48","doi-asserted-by":"crossref","first-page":"D344","DOI":"10.1093\/nar\/gkm791","article-title":"ChEBI: a database and ontology for chemical entities of biological interest","volume":"36","author":"Degtyarenko","year":"2008","journal-title":"Nucleic Acids Res."},{"key":"key\n\t\t\t\t20180618191009_bau100-B49","doi-asserted-by":"crossref","first-page":"149","DOI":"10.1016\/S0169-2607(98)00033-9","article-title":"Using ARROWSMITH: a computer-assisted approach to formulating and assessing scientific hypotheses","volume":"57","author":"Smalheiser","year":"1998","journal-title":"Comput. Methods Programs Biomedicine"},{"key":"key\n\t\t\t\t20180618191009_bau100-B50","doi-asserted-by":"crossref","DOI":"10.1145\/1056808.1057022","article-title":"Interaction design for literature-based discovery","volume-title":"CHI \u201805 Extended Abstracts on Human Factors in Computing Systems","author":"Skeels","year":"2005"},{"key":"key\n\t\t\t\t20180618191009_bau100-B51","first-page":"68","article-title":"Improving literature based discovery support by genetic knowledge integration","volume":"95","author":"Hristovski","year":"2003","journal-title":"Stud. Health Technol. Inform."},{"key":"key\n\t\t\t\t20180618191009_bau100-B52","doi-asserted-by":"crossref","first-page":"e82210","DOI":"10.1371\/journal.pone.0082210","article-title":"INDIGO-INtegrated data warehouse of microbial genomes with examples from the red sea extremophiles","volume":"8","author":"Alam","year":"2013","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180618191009_bau100-B53","doi-asserted-by":"crossref","first-page":"3580","DOI":"10.1128\/JB.01860-07","article-title":"A new lineage of halophilic, wall-less, contractile bacteria from a brine-filled deep of the Red Sea","volume":"190","author":"Antunes","year":"2008","journal-title":"J. Bacteriol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B54","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1007\/s00792-002-0292-5","article-title":"Salinisphaera shabanensis gen. nov., sp. nov., a novel, moderately halophilic bacterium from the brine-seawater interface of the Shaban Deep, Red Sea","volume":"7","author":"Antunes","year":"2003","journal-title":"Extremophiles"},{"key":"key\n\t\t\t\t20180618191009_bau100-B55","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1099\/ijs.0.65316-0","article-title":"Halorhabdus tiamatea sp. nov., a non-pigmented, extremely halophilic archaeon from a deep-sea, hypersaline anoxic basin of the Red Sea, and emended description of the genus Halorhabdus","volume":"58","author":"Antunes","year":"2008","journal-title":"Int. J. System. Evolut. Microbiol."},{"key":"key\n\t\t\t\t20180618191009_bau100-B56","doi-asserted-by":"crossref","first-page":"3150","DOI":"10.1093\/bioinformatics\/bts565","article-title":"CD-HIT: accelerated for clustering the next-generation sequencing data","volume":"28","author":"Fu","year":"2012","journal-title":"Bioinformatics"},{"key":"key\n\t\t\t\t20180618191009_bau100-B57","doi-asserted-by":"crossref","first-page":"e30619","DOI":"10.1371\/journal.pone.0030619","article-title":"NGS QC Toolkit: a toolkit for quality control of next generation sequencing data","volume":"7","author":"Patel","year":"2012","journal-title":"PLoS One"},{"key":"key\n\t\t\t\t20180618191009_bau100-B58","doi-asserted-by":"crossref","first-page":"1096","DOI":"10.1094\/MPMI.2001.14.9.1096","article-title":"Increased uptake of putrescine in the rhizosphere inhibits competitive root colonization by Pseudomonas fluorescens strain WCS365","volume":"14","author":"Kuiper","year":"2001","journal-title":"Mol. Plant-microbe Interact."},{"key":"key\n\t\t\t\t20180618191009_bau100-B59","doi-asserted-by":"crossref","first-page":"48","DOI":"10.1016\/j.jplph.2013.09.015","article-title":"Putrescine, a fast-acting switch for tolerance against osmotic stress","volume":"171","author":"Kotakis","year":"2014","journal-title":"J. Plant Physiol."}],"container-title":["Database"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/academic.oup.com\/database\/article-pdf\/doi\/10.1093\/database\/bau100\/17473508\/bau100.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,8,25]],"date-time":"2020-08-25T22:50:15Z","timestamp":1598395815000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/database\/article\/doi\/10.1093\/database\/bau100\/2635281"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2014,1,1]]},"references-count":59,"URL":"https:\/\/doi.org\/10.1093\/database\/bau100","relation":{},"ISSN":["1758-0463"],"issn-type":[{"value":"1758-0463","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2014]]},"published":{"date-parts":[[2014,1,1]]}}}