dc.contributor.author | Hanna, Eileen Marie | |
dc.contributor.author | Zhang, Xiaokang | |
dc.contributor.author | Eide, Marta | |
dc.contributor.author | Fallahi, Shirin | |
dc.contributor.author | Furmanek, Tomasz | |
dc.contributor.author | Yadetie, Fekadu | |
dc.contributor.author | Zielinski, Daniel Craig | |
dc.contributor.author | Goksøyr, Anders | |
dc.contributor.author | Jonassen, Inge | |
dc.date.accessioned | 2021-02-25T11:44:12Z | |
dc.date.available | 2021-02-25T11:44:12Z | |
dc.date.created | 2021-01-12T14:27:46Z | |
dc.date.issued | 2020-11 | |
dc.Published | Frontiers in Molecular Biosciences. 2020, 7 345-?. | |
dc.identifier.issn | 2296-889X | |
dc.identifier.uri | https://hdl.handle.net/11250/2730376 | |
dc.description.abstract | The availability of genome sequences, annotations, and knowledge of the biochemistry underlying metabolic transformations has led to the generation of metabolic network reconstructions for a wide range of organisms in bacteria, archaea, and eukaryotes. When modeled using mathematical representations, a reconstruction can simulate underlying genotype-phenotype relationships. Accordingly, genome-scale metabolic models (GEMs) can be used to predict the response of organisms to genetic and environmental variations. A bottom-up reconstruction procedure typically starts by generating a draft model from existing annotation data on a target organism. For model species, this part of the process can be straightforward, due to the abundant organism-specific biochemical data. However, the process becomes complicated for non-model less-annotated species. In this paper, we present a draft liver reconstruction, ReCodLiver0.9, of Atlantic cod (Gadus morhua), a non-model teleost fish, as a practicable guide for cases with comparably few resources. Although the reconstruction is considered a draft version, we show that it already has utility in elucidating metabolic response mechanisms to environmental toxicants by mapping gene expression data of exposure experiments to the resulting model. | en_US |
dc.language.iso | eng | en_US |
dc.publisher | Frontiers | en_US |
dc.rights | Navngivelse 4.0 Internasjonal | * |
dc.rights.uri | http://creativecommons.org/licenses/by/4.0/deed.no | * |
dc.title | ReCodLiver0.9: Overcoming Challenges in Genome-Scale Metabolic Reconstruction of a Non-model Species | en_US |
dc.type | Journal article | en_US |
dc.type | Peer reviewed | en_US |
dc.description.version | publishedVersion | en_US |
dc.rights.holder | Copyright: Hanna, Zhang, Eide, Fallahi, Furmanek, Yadetie, Zielinski, Goksøyr and Jonassen | en_US |
dc.source.articlenumber | 591406 | en_US |
cristin.ispublished | true | |
cristin.fulltext | original | |
cristin.qualitycode | 1 | |
dc.identifier.doi | 10.3389/fmolb.2020.591406 | |
dc.identifier.cristin | 1869909 | |
dc.source.journal | Frontiers in Molecular Biosciences | en_US |
dc.source.40 | 7 | |
dc.source.pagenumber | 345-? | en_US |
dc.relation.project | Norges forskningsråd: 248840 | en_US |
dc.source.volume | 7 | en_US |