pH range mid2

METPO:1000462 · CLASS · REVIEWED

A pH range phenotype in which the growth-supporting external pH range spans approximately 7–8, characteristic of neutrophile or mild-alkaliphile physiology.

pH-range-mid2 mild-alkaline-tolerance range

DOI-backed graph linking modest alkaline pH-homeostasis to a pH growth range of approximately 7–8.

pH-range-mid2 mild-alkaline-tolerance range Interactive directed graph showing evidence-backed causal relationships for pH range mid2.

Edge evidence

  • modest alkaline-tolerance physiology enables pH range mid2 RO:0002327

    Modest alkaline-tolerance physiology enables growth across pH 7–8.

    • DOI:10.1016/j.tim.2007.02.005 proton motive force Supports balanced proton motive force at slightly alkaline pH as the range mechanism.
  • pH range mid2 is a pH range rdfs:subClassOf

    pH range mid2 is a quantitative bin of the pH-range phenotype.

    • DOI:10.1038/nrmicro2549 cytoplasmic pH Supports the pH 7–8 range as a value within the pH-range distribution.
  • external pH 7-8 permits maintenance of cytoplasmic pH homeostasis

    External pH 7-8 permits cells to keep internal pH near 7.0-7.5.

    • DOI:10.1093/femsre/fuad033 Internal pH kept within 7.0-7.5 and PMF relatively constant across external pH 5-8.
  • cytoplasmic buffering stabilizes cytoplasmic pH homeostasis

    Cytoplasmic buffering stabilizes internal pH given very low free proton count.

    • DOI:10.1093/femsre/fuad033 A ~1 fL cytoplasm at pH 7.2 contains only ~10 free protons, so buffering is critical.
  • Na+/H+ antiporter activity acidifies cytoplasm

    Na+/H+ antiporter activity acidifies the cytoplasm when internal pH rises.

    • DOI:10.1093/femsre/fuad033 Na+/H+ and K+/H+ antiporters acidify the cytoplasm by exchanging exported cations for H+.
  • proton motive force remains relatively constant across external pH 5-8

    Neutralophiles keep PMF relatively constant across external pH ~5-8.

    • DOI:10.1093/femsre/fuad033 Neutralophilic bacteria adjust ΔpH vs Δψ so PMF stays relatively constant across external pH ~5-8.
  • membrane potential / ΔpH rebalancing maintains proton motive force

    Rebalancing of ΔpH and Δψ with external pH maintains PMF.

    • DOI:10.1093/femsre/fuad033 The relative contribution of ΔpH and Δψ shifts with external pH to preserve PMF.
  • F0F1-ATPase couples ATP synthesis

    F0F1-ATPase couples the proton motive force to ATP synthesis.

    • DOI:10.1093/femsre/fuad033 PMF drives ATP synthesis; F0F1 uses ~3-5 H+ per ATP.
  • proton:ion antiporters maintain membrane potential (Δψ)

    Proton:ion antiporters have a direct role in maintaining membrane potential.

    • DOI:10.1146/annurev-biophys-030822-032215 Antiporters have a direct role in maintaining membrane potential in E. coli.

Provenance

Source
METPO (2025-11-25)
Definition source
DOI:10.1038/nrmicro2549

Parent traits (1)

Synonyms (5)

  • Alkali Tolerant EXACT_SYNONYM · metpo.owl
  • Alkaliphile EXACT_SYNONYM · metpo.owl
  • Facultative acidophile EXACT_SYNONYM · metpo.owl
  • Neutrophile EXACT_SYNONYM · metpo.owl
  • pHR_7_to_8 RELATED_SYNONYM · metpo.owl

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000462 [-1.204, -0.579, -2.315, +2.278, …]

512-dim DeepWalkSkipGramEnsmallen embedding from kg-microbe (2026-04-25).

Nearest neighbors in embedding space

Top-8 cosine-similar METPO traits from the 2026-04-25 deepwalk (512-D).

Curation history

  1. · SEEDED_FROM_METPO · seed_from_metpo

    imported from data/raw/metpo.owl (CLASS)

  2. · CURATED_CAUSAL_GRAPH · claude

    Added DOI-backed definition and causal graph linking modest alkaline-tolerance physiology to the pH-range-mid2 bin.

  3. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 2 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002327×1, rdfs:subClassOf×1).

  4. · ENRICH_CAUSAL_GRAPH · claude

    Added 7 evidence-backed generic edges (12 new nodes) from the deep-research report.

  5. · GROUND_CAUSAL_NODES · claude

    Grounded 2 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0051453×1, GO:0005737×1).

  6. · GROUND_CAUSAL_NODES · claude

    Grounded 1 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0006754×1).