Unknown

Dataset Information

0

Nogales2020 - Genome-scale metabolic network of Pseudomonas putida (iJN1462)

ABSTRACT: 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.

SUBMITTER: Tanisha Malpani 

PROVIDER: MODEL2204040001 | biostudies-other |

SECONDARY ACCESSION(S): 31657101

REPOSITORIES: biostudies-other

Json Xml
altmetric image

Publications

High-quality genome-scale metabolic modelling of Pseudomonas putida highlights its broad metabolic capabilities.

Nogales Juan J   Mueller Joshua J   Gudmundsson Steinn S   Canalejo Francisco J FJ   Duque Estrella E   Monk Jonathan J   Feist Adam M AM   Ramos Juan Luis JL   Niu Wei W   Palsson Bernhard O BO  

Environmental microbiology 20191111 1

Genome-scale reconstructions of metabolism are computational species-specific knowledge bases able to compute systemic metabolic properties. We present a comprehensive and validated reconstruction of the biotechnologically relevant bacterium Pseudomonas putida KT2440 that greatly expands computable predictions of its metabolic states. The reconstruction represents a significant reactome expansion over available reconstructed bacterial metabolic networks. Specifically, iJN1462 (i) incorporates se  ...[more]

Similar Datasets

Unknown Genome-scale metabolic network model and phenome of solvent-tolerant Pseudomonas putida S12.
| S-EPMC10790481 | biostudies-literature
Unknown Genome-scale reconstruction and analysis of the Pseudomonas putida KT2440 metabolic network facilitates applications in biotechnology.
| S-EPMC2563689 | biostudies-literature
Unknown Sohn2010 - Genome-scale metabolic network of Pseudomonas putida (PpuMBEL1071)
| MODEL1507180043 | biostudies-other
Unknown Puchalka2008 - Genome-scale metabolic network of Pseudomonas putida (iJP815)
| MODEL1507180044 | biostudies-other
Unknown Nogales2008 - Genome-scale metabolic network of Pseudomonas putida (iJN746)
| MODEL1507180068 | biostudies-other
Unknown High-quality genome-scale metabolic modelling of Pseudomonas putida highlights its broad metabolic capabilities.
| S-EPMC7078882 | biostudies-literature
Unknown Genome-scale metabolic network analysis of the opportunistic pathogen Pseudomonas aeruginosa PAO1.
| S-EPMC2293256 | biostudies-literature
Unknown Reconstruction and metabolic profiling of the genome-scale metabolic network model of <i>Pseudomonas stutzeri</i> A1501.
| S-EPMC10624960 | biostudies-literature
Unknown Large-scale kinetic metabolic models of <i>Pseudomonas putida</i> KT2440 for consistent design of metabolic engineering strategies.
| S-EPMC7048048 | biostudies-literature
Unknown Addressing genome scale design tradeoffs in Pseudomonas putida for bioconversion of an aromatic carbon source.
| S-EPMC11732973 | biostudies-literature