intracellular inclusion

Edge evidence

• intracellular inclusion enables cytoplasmic compartmentalization RO:0002327

  Inclusions partition activities within the prokaryotic cytoplasm.

  • DOI:10.1038/s41579-020-0413-0 Greening & Lithgow review formation and function of bacterial organelles/inclusions.
• bacterial microcompartment example of intracellular inclusion rdfs:subClassOf

  Bacterial microcompartments are protein-bounded inclusion organelles.

  • DOI:10.1038/nrmicro.2018.10 Kerfeld et al. review bacterial microcompartments as protein-bounded intracellular organelles.
• PhaA/PhaB/PhaC pathway produces PHA granule METPO:2000202

  The Pha biosynthetic pathway synthesizes PHA chains that form storage granules.

  • DOI:10.3390/molecules29102293 "Synthesized PHA chains form intracellular inclusion bodies commonly called PHA granules"; storage-granule subclass.
• nitrogen depletion increases accumulation of PHA granule

  Depletion of N (and S, P) is a broad trigger for PHA granule accumulation.

  • DOI:10.3390/molecules29102293 "Environmental and cultivation triggers for accumulation include... depletion of N, S, P"; broad, not species-specific.
• polyphosphate kinase (Ppk) synthesizes polyphosphate granule

  Ppk catalyzes polyphosphate synthesis forming the polyP/volutin granule.

  • DOI:10.3390/foods14132211 "polyP synthesis is catalyzed by polyphosphate kinase (Ppk)".
• gas vesicle gene cluster encodes gas vesicle biolink:encodes

  The gvp gene cluster encodes the gas vesicle organelle.

  • DOI:10.1186/s13036-024-00426-3 "gene-encoded, inert, hollow, gas-filled protein nanoparticles"; direct definitional edge.
• gas vesicle enables buoyancy RO:0002327

  Gas vesicles confer buoyancy enabling positioning in the water column.

  • DOI:10.1186/s13036-024-00426-3 "enabling buoyancy for microbes"; core phenotype/function edge.
• bacterial microcompartment encapsulates encapsulated metabolic enzymes

  BMC shells encapsulate a segment of a metabolic pathway in a selectively permeable shell.

  • DOI:10.1042/bst20230229 "encapsulate a segment of a metabolic pathway within a selectively permeable protein shell"; direct BMC definition.
• sulfide oxidation forms intracellular sulfur globule biolink:produces

  Sulfide oxidation proceeds via intracellular accumulation of elemental sulfur globules.

  • DOI:10.1371/journal.pone.0310265 "oxidized to sulfate through an intermediate accumulation of elemental sulfur (S0) within the cell in the form of sulfur globules"; definitional.