biostudies-otherUnknown22Tanisha MalpaniEnvironmental microbiology255-269https://www.ebi.ac.uk/biostudies/studies/MODEL2204040001biostudies-other31657101IndumathiDavid San León GranadoTanisha MalpanifalseNogales2020 - Genome-scale metabolic network of Pseudomonas putida (iJN1462)iJN1462 (i) incorporates several hundred additional genes and associated reactions resulting in new predictive capabilities, including new nutrients supporting growth; (ii) was validated by in vivo growth screens that included previously untested carbon (48) and nitrogen (41) sources; (iii) yielded gene essentiality predictions showing large accuracy when compared with a knock-out library and Bar-seq data; and (iv) allowed mapping of its network to 82 P. putida sequenced strains revealing functional core that reflect the large metabolic versatility of this species, including aromatic compounds derived from lignin.2022-04-04T00:00:00Z2025-07-15T08:55:30.128Z2025-03-31T12:26:46.856ZMODEL2204040001CHEBI:11629CHEBI:12958CHEBI:57865CHEBI:57863CHEBI:32563CHEBI:32564CHEBI:12955CHEBI:32565CHEBI:36926CHEBI:40192CHEBI:12953CHEBI:8335CHEBI:45877CHEBI:18267CHEBI:57872CHEBI:23601CHEBI:24930CHEBI:19594CHEBI:18263CHEBI:18261CHEBI:11619CHEBI:11618CHEBI:57856CHEBI:11616CHEBI:57854CHEBI:20572CHEBI:57852CHEBI:11614CHEBI:11613CHEBI:11612CHEBI:43228CHEBI:24928CHEBI:68507CHEBI:43227CHEBI:24926CHEBI:18257CHEBI:44553CHEBI:57861CHEBI:18253CHEBI:20566CHEBI:57887CHEBI:20561CHEBI:61909CHEBI:11604CHEBI:27192CHEBI:43239CHEBI:48928CHEBI:43237CHEBI:44568CHEBI:18247CHEBI:45896CHEBI:18243CHEBI:61904CHEBI:48926CHEBI:12929CHEBI:12921CHEBI:44585CHEBI:43254CHEBI:12923CHEBI:44583CHEBI:553CHEBI:43252CHEBI:20549CHEBI:24907CHEBI:20548CHEBI:18237CHEBI:18231CHEBI:20540CHEBI:20547CHEBI:20546CHEBI:57823CHEBI:32529CHEBI:57822CHEBI:8370CHEBI:8372CHEBI:566CHEBI:33851CHEBI:12999CHEBI:8371CHEBI:565CHEBI:8374CHEBI:86392CHEBI:8373CHEBI:12994CHEBI:8376CHEBI:86394CHEBI:8375CHEBI:8377CHEBI:45834CHEBI:574CHEBI:11673CHEBI:44501CHEBI:573CHEBI:44500CHEBI:572CHEBI:23642CHEBI:23649CHEBI:10329CHEBI:23640CHEBI:12987CHEBI:32530CHEBI:32531CHEBI:32532CHEBI:11652CHEBI:575CHEBI:12983CHEBI:61085CHEBI:12984CHEBI:12985CHEBI:12986CHEBI:41489CHEBI:45845CHEBI:45843CHEBI:33871CHEBI:73091CHEBI:18297CHEBI:73093CHEBI:57845CHEBI:11649CHEBI:57844CHEBI:57841CHEBI:11643CHEBI:11641CHEBI:12979CHEBI:32544CHEBI:12975CHEBI:132362CHEBI:12982CHEBI:23629CHEBI:24959CHEBI:11651CHEBI:11650CHEBI:32550CHEBI:32551CHEBI:24958CHEBI:23624CHEBI:44529CHEBI:18281CHEBI:57834CHEBI:11638CHEBI:12965CHEBI:32552CHEBI:43210CHEBI:12967CHEBI:10300CHEBI:32556CHEBI:11636CHEBI:12962CHEBI:32557CHEBI:11635CHEBI:8345CHEBI:32558CHEBI:43206CHEBI:45868CHEBI:12970CHEBI:18277CHEBI:18272CHEBI:20588CHEBI:21030CHEBI:58318CHEBI:21032CHEBI:13409CHEBI:46332CHEBI:21031CHEBI:22365CHEBI:58315CHEBI:14737CHEBI:13405CHEBI:14736CHEBI:13406CHEBI:45001CHEBI:13407CHEBI:14739CHEBI:14738CHEBI:33017CHEBI:33018CHEBI:7881CHEBI:33019CHEBI:14732CHEBI:14735CHEBI:7882CHEBI:10380CHEBI:5225CHEBI:5228CHEBI:21025CHEBI:58323CHEBI:21027CHEBI:26717CHEBI:58321CHEBI:21026CHEBI:21029CHEBI:58320CHEBI:21028CHEBI:58309CHEBI:58307CHEBI:22353CHEBI:22354CHEBI:21023CHEBI:47675CHEBI:22352CHEBI:21022CHEBI:14726CHEBI:45012CHEBI:67261CHEBI:5212CHEBI:5214CHEBI:7875CHEBI:14730CHEBI:13400CHEBI:10375CHEBI:35697CHEBI:26704CHEBI:22346CHEBI:26705CHEBI:21013CHEBI:46352CHEBI:58339CHEBI:35699CHEBI:45024CHEBI:11686CHEBI:11689CHEBI:10358CHEBI:7860CHEBI:11691CHEBI:14720CHEBI:11695CHEBI:11694CHEBI:11692CHEBI:60655CHEBI:61988CHEBI:58345CHEBI:60656CHEBI:21004CHEBI:58343CHEBI:58340CHEBI:46362CHEBI:24994CHEBI:21001CHEBI:14703CHEBI:11675CHEBI:10343CHEBI:14702CHEBI:11679CHEBI:11680CHEBI:2170CHEBI:45028CHEBI:48950CHEBI:21078CHEBI:17808CHEBI:17805CHEBI:44594CHEBI:73912CHEBI:13445CHEBI:14779CHEBI:12117CHEBI:14778CHEBI:14784CHEBI:9624CHEBI:12122CHEBI:12123CHEBI:5268CHEBI:9623CHEBI:456215CHEBI:14780CHEBI:456216CHEBI:14782CHEBI:48942CHEBI:26754CHEBI:21065CHEBI:21066CHEBI:12107CHEBI:12108CHEBI:12109CHEBI:5250CHEBI:12103CHEBI:12104CHEBI:12110CHEBI:12111CHEBI:48954CHEBI:21058CHEBI:21057CHEBI:48957CHEBI:10399CHEBI:36990CHEBI:12100CHEBI:12101CHEBI:12102CHEBI:21046CHEBI:26733CHEBI:46308CHEBI:43290CHEBI:26732CHEBI:13416CHEBI:143888CHEBI:13419CHEBI:43293CHEBI:233028CHEBI:7896CHEBI:14751CHEBI:5234CHEBI:13420CHEBI:7898CHEBI:14752CHEBI:61933CHEBI:46315CHEBI:2229CHEBI:71259CHEBI:50315CHEBI:17728CHEBI:39999CHEBI:12038CHEBI:14699CHEBI:17724CHEBI:46293CHEBI:4881CHEBI:4880CHEBI:17732CHEBI:58280CHEBI:13371CHEBI:13372CHEBI:12042CHEBI:13373CHEBI:40980CHEBI:13374CHEBI:58289CHEBI:24016CHEBI:13370CHEBI:48000CHEBI:71263CHEBI:48006CHEBI:17719CHEBI:52969CHEBI:13357CHEBI:17716CHEBI:17713CHEBI:12029CHEBI:2231CHEBI:58272CHEBI:13364CHEBI:13365CHEBI:14698CHEBI:13367CHEBI:13362CHEBI:13363CHEBI:7914CHEBI:58278CHEBI:7916CHEBI:58274CHEBI:26663CHEBI:27995CHEBI:26664CHEBI:27992CHEBI:26662CHEBI:17709CHEBI:12016CHEBI:2200CHEBI:17705CHEBI:12018CHEBI:12023CHEBI:13354CHEBI:14684CHEBI:17712CHEBI:12024CHEBI:13355CHEBI:12025CHEBI:13356CHEBI:14681CHEBI:12020CHEBI:13351CHEBI:13352CHEBI:71242CHEBI:71244CHEBI:4879CHEBI:12007CHEBI:15999CHEBI:13342CHEBI:13344CHEBI:13345CHEBI:13340CHEBI:13341CHEBI:42715CHEBI:58297CHEBI:58296CHEBI:26648CHEBI:29751CHEBI:25399CHEBI:84523CHEBI:15107CHEBI:17769CHEBI:17775CHEBI:6635CHEBI:17771CHEBI:58247CHEBI:58245CHEBI:29748CHEBI:58243CHEBI:40942CHEBI:58241CHEBI:29749CHEBI:46262CHEBI:28413CHEBI:58228CHEBI:16426CHEBI:16433CHEBI:12078CHEBI:17764CHEBI:16435CHEBI:16430CHEBI:39975CHEBI:12075CHEBI:39973CHEBI:58231CHEBI:59562CHEBI:25374CHEBI:2247CHEBI:37318CHEBI:39978CHEBI:12059CHEBI:25371CHEBI:17748CHEBI:37319CHEBI:40961CHEBI:13397CHEBI:13398CHEBI:12068CHEBI:13399CHEBI:17754CHEBI:12069CHEBI:16424CHEBI:13393CHEBI:12063CHEBI:13394CHEBI:13395CHEBI:17750CHEBI:13396CHEBI:12061CHEBI:58264CHEBI:58262CHEBI:63606CHEBI:24033CHEBI:84519CHEBI:46286CHEBI:24030CHEBI:26699CHEBI:25368CHEBI:46287CHEBI:46288CHEBI:46289CHEBI:25366CHEBI:26690CHEBI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