nutrient adaptation

Edge evidence

• ambient nutrient concentration causes nutrient sensing biolink:causes

  Ambient nutrient levels are detected by cellular sensing systems.

  • DOI:10.1073/pnas.0903507106 high (copiotrophic) or low (oligotrophic) nutrient concentrations Supports nutrient concentration as the environmental driver of the adaptation axis.
• nutrient sensing controls resource allocation strategy RO:0002211

  Sensing of nutrient status shifts allocation between growth and maintenance functions.

  • DOI:10.1038/ismej.2014.60 selection for efficient use of nutrients Supports nutrient regime as a driver of resource-allocation strategy.
• resource allocation strategy manifests as copiotrophic METPO:2007400

  Allocation favoring rapid growth machinery yields a copiotrophic phenotype under nutrient-rich conditions.

  • DOI:10.1073/pnas.0903507106 high (copiotrophic) nutrient concentrations Supports copiotrophy as one expression of nutrient adaptation.
• resource allocation strategy manifests as oligotrophic METPO:2007400

  Allocation favoring high-affinity uptake and streamlining yields an oligotrophic phenotype under nutrient-poor conditions.

  • DOI:10.1038/ismej.2014.60 small cells and genomes Supports oligotrophy as a streamlining-driven expression of nutrient adaptation.
• copiotrophic is a nutrient adaptation rdfs:subClassOf

  Copiotrophy is a child phenotype of nutrient adaptation.

  • DOI:10.1073/pnas.0903507106 copiotrophic Supports copiotrophy as a recognized nutrient-adaptation phenotype.
• oligotrophic is a nutrient adaptation rdfs:subClassOf

  Oligotrophy is a child phenotype of nutrient adaptation.

  • DOI:10.1073/pnas.0903507106 oligotrophic Supports oligotrophy as a recognized nutrient-adaptation phenotype.
• chronic nutrient limitation selects for genome streamlining METPO:2007401

  Chronic nutrient limitation selects for streamlined small cells and genomes.

  • DOI:10.1038/ismej.2014.60 Streamlining theory attributes small cells and genomes to selection for efficient use of nutrients where nutrients limit; broad across oligotrophic microbes.
• oligotrophic negatively regulates chemotaxis and motility genes RO:0002212

  Oligotrophic adaptation is associated with under-representation of chemotaxis and motility genes.

  • DOI:10.1093/ismeco/ycae081 Oligotroph genomes had energy-intensive functions like chemotaxis and motility under-represented.
• copiotrophic positively regulates motility and signal-transduction genes RO:0002213

  Copiotrophic strategy is enriched in genes for motility and signal transduction.

  • DOI:10.1073/pnas.0903507106 Copiotrophs are enriched in genes for motility and sensing and signal transduction.
• rrn operon copy number positively correlates with maximum growth potential

  Higher rrn operon copy number associates with higher maximum growth potential.

  • DOI:10.1038/s41564-023-01465-0 Secondary life-history dimension correlated with ribosomal gene copy number; positive correlation between potential growth and rrn copy number.
• maximum growth potential negatively correlates with carbohydrate acquisition gene abundance

  Maximum growth potential trades off with abundance of carbohydrate acquisition genes.

  • DOI:10.1038/s41467-024-50382-1 Growth potential was negatively correlated with relative abundances of carbohydrate metabolism genes; apparent tradeoff between growth potential and resource acquisition.