Browsing SINTEF Open by Author "Almaas, Eivind"
Now showing items 1-6 of 6
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Addressing uncertainty in genome-scale metabolic model reconstruction and analysis
Bernstein, David; Sulheim, Snorre; Almaas, Eivind; Segrè, Daniel (Peer reviewed; Journal article, 2021)The reconstruction and analysis of genome-scale metabolic models constitutes a powerful systems biology approach, with applications ranging from basic understanding of genotype-phenotype mapping to solving biomedical and ... -
Automatic reconstruction of metabolic pathways from identified biosynthetic gene clusters
Sulheim, Snorre; Fossheim, Fredrik A.; Wentzel, Alexander; Almaas, Eivind (Peer reviewed; Journal article, 2021)A wide range of bioactive compounds is produced by enzymes and enzymatic complexes encoded in biosynthetic gene clusters (BGCs). These BGCs can be identified and functionally annotated based on their DNA sequence. Candidates ... -
Dynamic Allocation of Carbon Storage and Nutrient-Dependent Exudation in a Revised Genome-Scale Model of Prochlorococcus
Ofaim, Shany; Sulheim, Snorre; Almaas, Eivind; Sher, Daniel; Segrè, Daniel (Peer reviewed; Journal article, 2021)Microbial life in the oceans impacts the entire marine ecosystem, global biogeochemistry and climate. The marine cyanobacterium Prochlorococcus, an abundant component of this ecosystem, releases a significant fraction of ... -
Enzyme-Constrained Models and Omics Analysis of Streptomyces coelicolor Reveal Metabolic Changes that Enhance Heterologous Production
Sulheim, Snorre; Kumelj, Tjasa; van Dissel, Dino; Salehzadeh-Yazdi, Ali; Chao, Du; Van Wezel, Gilles P.; Nieselt, Kay; Almaas, Eivind; Wentzel, Alexander; Kerkhoven, Eduard J (Peer reviewed; Journal article, 2020)Many biosynthetic gene clusters (BGCs) require heterologous expression to realize their genetic potential, including silent and metagenomic BGCs. Although the engineered Streptomyces coelicolor M1152 is a widely used host ... -
Non-Invasive Analysis of Recombinant mRNA Stability in Escherichia coli by a Combination of Transcriptional Inducer Wash-Out and qRT-PCR
Kucharova, Veronika; Aakvik, Trine; Almaas, Eivind; Naas, Adrian Ertsås; Brautaset, Trygve; Valla, Svein (Journal article; Peer reviewed, 2013)mRNA stability is one among many parameters that can potentially affect the level of recombinant gene expression in bacteria. Blocking of the entire prokaryotic transcription machinery by addition of rifampicin is commonly ... -
Predicting strain engineering strategies using iKS1317: a genome-scale metabolic model of Streptomyces coelicolor
Kumelj, Tjasa; Sulheim, Snorre; Wentzel, Alexander; Almaas, Eivind (Peer reviewed; Journal article, 2018)Streptomyces coelicolor is a model organism for the Actinobacteria, a phylum known to produce an extensive range of different bioactive compounds that include antibiotics currently used in the clinic. Biosynthetic gene ...