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A genome-scale metabolic reconstruction provides insight into the metabolism of the thermophilic bacterium Rhodothermus marinus

Kristjansdottir, Thordis ; Hreggvidsson, Gudmundur O ; Gudmundsdottir, Elisabet Eik ; Bjornsdottir, Snaedis H ; Fridjonsson, Olafur H. ; Stefansson, Sigmar Karl ; Nordberg Karlsson, Eva LU orcid ; Vanhalst, Justine ; Reynisson, Birkir and Gudmundsson, Steinn (2025) In FEMS Microbiology Ecology 101(1).
Abstract
The thermophilic bacterium Rhodothermus marinus has mainly been studied for its thermostable enzymes. More recently, the potential of using the species as a cell factory and in biorefinery platforms has been explored, due to the elevated growth temperature, native production of compounds such as carotenoids and exopolysaccharides, the ability to grow on a wide range of carbon sources including polysaccharides, and available genetic tools. A comprehensive understanding of the metabolism of cell factories is important. Here, we report a genome-scale metabolic model of R. marinus DSM 4252T. Moreover, the genome of the genetically amenable R. marinus ISCaR-493 was sequenced and the analysis of the core... (More)
The thermophilic bacterium Rhodothermus marinus has mainly been studied for its thermostable enzymes. More recently, the potential of using the species as a cell factory and in biorefinery platforms has been explored, due to the elevated growth temperature, native production of compounds such as carotenoids and exopolysaccharides, the ability to grow on a wide range of carbon sources including polysaccharides, and available genetic tools. A comprehensive understanding of the metabolism of cell factories is important. Here, we report a genome-scale metabolic model of R. marinus DSM 4252T. Moreover, the genome of the genetically amenable R. marinus ISCaR-493 was sequenced and the analysis of the core genome indicated that the model could be used for both strains. Bioreactor growth data were obtained, used for constraining the model and the predicted and experimental growth rates were compared. The model correctly predicted the growth rates of both strains. During the reconstruction process, different aspects of the R. marinus metabolism were reviewed and subsequently, both cell densities and carotenoid production were investigated for strain ISCaR-493 under different growth conditions. Additionally, the dxs gene, which was not found in the R. marinus genomes, from Thermus thermophilus was cloned on a shuttle vector into strain ISCaR-493 resulting in a higher yield of carotenoids. (Less)
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author
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organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Genome, Bacterial, Rhodothermus/genetics, Carotenoids/metabolism, Bioreactors
in
FEMS Microbiology Ecology
volume
101
issue
1
article number
fiae167
pages
14 pages
publisher
Oxford University Press
external identifiers
  • scopus:85215647351
  • pmid:39716382
ISSN
1574-6941
DOI
10.1093/femsec/fiae167
language
English
LU publication?
yes
additional info
© The Author(s) 2024. Published by Oxford University Press on behalf of FEMS.
id
50eac7f4-761a-4937-a1ed-85be410164e4
date added to LUP
2025-02-03 12:11:33
date last changed
2025-03-04 05:35:26
@article{50eac7f4-761a-4937-a1ed-85be410164e4,
  abstract     = {{The thermophilic bacterium <em>Rhodothermus marinus</em> has mainly been studied for its thermostable enzymes. More recently, the potential of using the species as a cell factory and in biorefinery platforms has been explored, due to the elevated growth temperature, native production of compounds such as carotenoids and exopolysaccharides, the ability to grow on a wide range of carbon sources including polysaccharides, and available genetic tools. A comprehensive understanding of the metabolism of cell factories is important. Here, we report a genome-scale metabolic model of <em>R. marinus</em> DSM 4252<sup>T</sup>. Moreover, the genome of the genetically amenable <em>R. marinus</em> ISCaR-493 was sequenced and the analysis of the core genome indicated that the model could be used for both strains. Bioreactor growth data were obtained, used for constraining the model and the predicted and experimental growth rates were compared. The model correctly predicted the growth rates of both strains. During the reconstruction process, different aspects of the <em>R. marinus</em> metabolism were reviewed and subsequently, both cell densities and carotenoid production were investigated for strain ISCaR-493 under different growth conditions. Additionally, the <em>dxs</em> gene, which was not found in the <em>R. marinus</em> genomes, from <em>Thermus thermophilus</em> was cloned on a shuttle vector into strain ISCaR-493 resulting in a higher yield of carotenoids.}},
  author       = {{Kristjansdottir, Thordis and Hreggvidsson, Gudmundur O and Gudmundsdottir, Elisabet Eik and Bjornsdottir, Snaedis H and Fridjonsson, Olafur H. and Stefansson, Sigmar Karl and Nordberg Karlsson, Eva and Vanhalst, Justine and Reynisson, Birkir and Gudmundsson, Steinn}},
  issn         = {{1574-6941}},
  keywords     = {{Genome, Bacterial; Rhodothermus/genetics; Carotenoids/metabolism; Bioreactors}},
  language     = {{eng}},
  month        = {{01}},
  number       = {{1}},
  publisher    = {{Oxford University Press}},
  series       = {{FEMS Microbiology Ecology}},
  title        = {{A genome-scale metabolic reconstruction provides insight into the metabolism of the thermophilic bacterium <i>Rhodothermus marinus</i>}},
  url          = {{http://dx.doi.org/10.1093/femsec/fiae167}},
  doi          = {{10.1093/femsec/fiae167}},
  volume       = {{101}},
  year         = {{2025}},
}