CFSA: Comparative Flux Sampling Analysis as a Guide for Strain Design Article Swipe
Rik P. van Rosmalen
,
Sara Moreno‐Paz
,
Zeynep Efsun Duman‐Özdamar
,
María Suárez‐Diez
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.06.15.545085
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1101/2023.06.15.545085
Genome-scale metabolic models of microbial metabolism have extensively been used to guide the design of microbial cell factories, still, many of the available strain design algorithms often fail to produce a reduced list of targets for improved performance that can be implemented and validated in a step-wise manner. We present Comparative Flux Sampling Analysis (CFSA), a strain design method based on the extensive comparison of complete metabolic spaces corresponding to maximal or near-maximal growth and production phenotypes. The comparison is complemented by statistical analysis to identify reactions with altered flux that are suggested as targets for genetic interventions including up-regulations, down-regulations and gene deletions. We applied CFSA to the production of lipids by Cutaneotrichosporon oleaginosus and naringenin by Saccharomyces cerevisiae identifying engineering targets in agreement with previous studies as well as new interventions. CFSA is an easy-to-use, robust method that suggests potential metabolic engineering targets for growth-uncoupled production that can be applied to the design of microbial cell factories.
Related Topics
Concepts
Metabolic engineering
Flux balance analysis
Flux (metallurgy)
Metabolic flux analysis
Naringenin
Strain (injury)
Sampling (signal processing)
Saccharomyces cerevisiae
Biochemical engineering
Computational biology
Production (economics)
Computer science
Biological system
Biology
Data mining
Engineering
Gene
Chemistry
Genetics
Biochemistry
Metabolism
Computer vision
Economics
Anatomy
Macroeconomics
Flavonoid
Antioxidant
Organic chemistry
Filter (signal processing)
Metadata
- Type
- preprint
- Language
- en
- Landing Page
- https://doi.org/10.1101/2023.06.15.545085
- https://www.biorxiv.org/content/biorxiv/early/2023/06/15/2023.06.15.545085.full.pdf
- OA Status
- green
- Cited By
- 2
- References
- 49
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4380792091
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4380792091Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1101/2023.06.15.545085Digital Object Identifier
- Title
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CFSA: Comparative Flux Sampling Analysis as a Guide for Strain DesignWork title
- Type
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preprintOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
-
2023-06-15Full publication date if available
- Authors
-
Rik P. van Rosmalen, Sara Moreno‐Paz, Zeynep Efsun Duman‐Özdamar, María Suárez‐DiezList of authors in order
- Landing page
-
https://doi.org/10.1101/2023.06.15.545085Publisher landing page
- PDF URL
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https://www.biorxiv.org/content/biorxiv/early/2023/06/15/2023.06.15.545085.full.pdfDirect link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
greenOpen access status per OpenAlex
- OA URL
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https://www.biorxiv.org/content/biorxiv/early/2023/06/15/2023.06.15.545085.full.pdfDirect OA link when available
- Concepts
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Metabolic engineering, Flux balance analysis, Flux (metallurgy), Metabolic flux analysis, Naringenin, Strain (injury), Sampling (signal processing), Saccharomyces cerevisiae, Biochemical engineering, Computational biology, Production (economics), Computer science, Biological system, Biology, Data mining, Engineering, Gene, Chemistry, Genetics, Biochemistry, Metabolism, Computer vision, Economics, Anatomy, Macroeconomics, Flavonoid, Antioxidant, Organic chemistry, Filter (signal processing)Top concepts (fields/topics) attached by OpenAlex
- Cited by
-
2Total citation count in OpenAlex
- Citations by year (recent)
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2024: 2Per-year citation counts (last 5 years)
- References (count)
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49Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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