pH range very low

METPO:1000459 · CLASS · REVIEWED

A pH range phenotype in which growth extends to external pH at or below approximately 4, characteristic of extreme-acidophile physiology.

pH-range-very-low extreme-acidophile range

DOI-backed graph linking extreme-acidophile proton-exclusion physiology to a pH growth range reaching ≤ ~4.

pH-range-very-low extreme-acidophile range Interactive directed graph showing evidence-backed causal relationships for pH range very low.

Edge evidence

  • extreme-acidophile envelope barrier enables pH range very low RO:0002327

    Extreme-acidophile envelope barriers enable growth at pH ≤ 4.

    • DOI:10.1016/j.tim.2007.02.005 reversed membrane potential Supports envelope and membrane-potential mechanisms as enablers of growth at strongly acidic pH.
  • pH range very low is a pH range rdfs:subClassOf

    pH range very low is a quantitative bin of the pH-range phenotype.

    • DOI:10.1038/nrmicro2549 growing at pH 1.0-3.0 Supports a very-low pH range as a value within the pH-range distribution.
  • potassium influx / K+ transport causes inside-positive (reversed) membrane potential biolink:causes

    Active influx of cations such as K+ generates an inside-positive membrane potential.

    • DOI:10.1128/9781555818821.ch4.3.1 generate positive (inside) membrane potentials via the active influx of cations, such as K+; mechanism general to acidophiles.
  • inside-positive (reversed) membrane potential reduces passive proton influx METPO:2000017

    The inside-positive (reversed) membrane potential reduces passive proton influx, supporting a large ΔpH.

    • DOI:10.1038/nrmicro2549 maintain a large transmembrane ΔpH supported by a reversed membrane potential (inside-positive); links reversed Δψ to reduced proton entry.
  • low passive proton permeability enables maintenance of near-neutral cytoplasmic pH

    Low passive proton permeability enables maintenance of a near-neutral cytoplasmic pH at acidic external pH.

    • DOI:10.3389/frbis.2023.1338019 a low passive proton permeability and a near neutral intracellular pH can be maintained.
  • protonated weak organic acids diffuse into cytoplasm

    Lipophilic protonated weak organic acids can diffuse across the membrane into the cytoplasm.

    • DOI:10.1128/9781555818821.ch4.3.1 lipophilic weak organic acids can diffuse in and acidify the cytoplasm; general principle, key boundary condition for acidophily.
  • protonated weak organic acids cause cytoplasmic acidification

    Permeant weak organic acids dissociate inside the cell and acidify the cytoplasm.

    • DOI:10.1128/AEM.04031-15 small organic acids can act as uncouplers and acidify the cytoplasm; strong inhibitor edge distinguishing mineral from permeant organic acids.

Provenance

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

Parent traits (1)

Synonyms (6)

  • Acid Tolerant EXACT_SYNONYM · metpo.owl
  • Acidophile EXACT_SYNONYM · metpo.owl
  • Extreme Acidophile EXACT_SYNONYM · metpo.owl
  • Facultative acidophile EXACT_SYNONYM · metpo.owl
  • Obligative acidophile EXACT_SYNONYM · metpo.owl
  • pHR_0_to_4 RELATED_SYNONYM · metpo.owl

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1000459 [-0.855, -1.364, -1.665, +2.241, …]

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 extreme-acidophile envelope barriers to the pH-range-very-low 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 5 evidence-backed generic edges (8 new nodes) from the deep-research report.

  5. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 2 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (biolink:causes×1, METPO:2000017×1).

  6. · GROUND_CAUSAL_NODES · claude

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