phagocytic vesicle lumen

GO:0097013 · Membrane organelle · Subcellular region · Proposed

The volume enclosed by a phagocytic vesicle membrane. [GO:0097013]

Synonyms: Phagosome lumen; Phagosomal lumen

Part of: phagocytic vesicle (GO:0045335)

Xrefs: uniprot.location:SL-0342 — Phagosome lumen

UniProt location names: UniProt Consortium, CC BY 4.0. Reference label and route sources.

Taxonomic distribution

• NCBITaxon:44689 Dictyostelium discoideum — COMMON: Dictyostelium discoideum phagosomes have lumens that acidify and mature after particle uptake. [PMID:12388753]

Canonical examples

• NCBITaxon:44689 Dictyostelium discoideum — Amoebozoan model in which luminal phagosome maturation was resolved across temporally distinct membrane-trafficking and acidification phases. [PMID:12388753]

Functions

• phagosome acidification GO:0090383 — The phagocytic vesicle lumen acidifies as newly formed phagosomes mature toward late digestive compartments.
  • GO:0090383 GO:0090383 defines phagosome acidification as the reduction of phagosome pH.
  • PMID:12388753 Gotthardt et al. 2002 dissected Dictyostelium phagosome maturation into stages with distinct luminal-acidification behavior.

Mechanism graphs

Phagocytic vesicle lumen topology (FUNCTION)

The phagocytic vesicle membrane bounds the phagocytic vesicle lumen inside the phagocytic vesicle as newly formed phagosomes acidify during maturation.

Discussions

• INTERPRETATION (RESOLVED): Represent the phagocytic vesicle membrane as the boundary of the lumen rather than as a lumen component. GO:0097013 denotes the lumenal volume enclosed by the phagocytic vesicle membrane, not a stable molecular constituent table. The membrane is therefore modeled as a boundary node in the topology graph.
• INTERPRETATION (RESOLVED): Keep variable phagocytosed cargo and maturation enzymes out of the generic phagocytic vesicle lumen components. The phagocytic vesicle lumen is the bounded volume inside the vesicle. The ingested particle and soluble hydrolases depend on phagosome cargo and maturation stage, so this generic lumen record does not assert a stable cargo or enzyme component.

Evidence

• GO:0097013 Gene Ontology cellular-component term for the phagocytic vesicle lumen.
• GO:0060205 Gene Ontology cellular-component term for the broader cytoplasmic vesicle lumen class.
• GO:0045335 Gene Ontology cellular-component term for the enclosing phagocytic vesicle.
• GO:0030670 Gene Ontology cellular-component term for the membrane that bounds the phagocytic vesicle lumen.
• GO:0090383 Gene Ontology biological-process term for phagosome acidification.
• uniprot.location:SL-0342 — Phagosome lumen UniProt Subcellular Location entry SL-0342 identifies Phagosome lumen, lists Phagocytic vesicle lumen and Phagosomal lumen as synonyms, places it under cytoplasmic vesicle lumen, and names Phagosome as the parent.
• PMID:12388753 Gotthardt et al. 2002, High-resolution dissection of phagosome maturation reveals distinct membrane trafficking phases, Molecular Biology of the Cell.

Curation history

• 2026-09-23T19:30:37Z codex · CREATED_RECORD — Scaffolded by scripts/new_record.py
• 2026-09-23T19:32:06Z codex · EXPANDED_RECORD — Added UniProt SL-0342 synonymy and xref, cytoplasmic-vesicle-lumen parentage, phagocytic-vesicle parthood, Dictyostelium scope, GO/UniProt/PMID evidence, a phagosome-acidification function, a nonmechanistic phagocytic-vesicle lumen topology graph, and resolved lumen boundary and cargo-scope discussions.
• 2026-09-23T19:42:39Z codex · ADDRESS_REVIEW — Resolved #1421 by retargeting the phagosome-acidification graph edge from a process-as-agent acidifies edge to a lumen-undergoes-process edge.

Source: data/structures/membrane_organelle/phagocytic_vesicle_lumen.yaml