spore germination

traitmech:000083 · CLASS · REVIEWED

The physiological process by which a dormant spore exits dormancy and resumes vegetative growth in response to germinant signals, including release of dipicolinic acid and rehydration of the spore core.

Germinant-triggered spore germination

Evidence-backed causal sketch linking germinant signals to exit from spore dormancy and resumption of growth.

Germinant-triggered spore germination Interactive directed graph showing evidence-backed causal relationships for spore germination.

Edge evidence

  • germinant causes spore germination biolink:causes

    Germinant binding triggers the germination process.

    • DOI:10.1016/j.mib.2003.10.001 Setlow reviews germinant-triggered spore germination.
  • spore germination enables spore germination RO:0002327

    The germination process realizes the spore-germination trait.

    • DOI:10.1038/nrmicro2504 Lennon & Jones frame germination as resuscitation from dormancy.
  • spore germination causes CaDPA release from spore core biolink:causes

    The germination process drives SpoVA-mediated release of calcium dipicolinate from the spore core.

    • DOI:10.1126/science.adg9829 Ion release during germination drives expulsion of dipicolinic acid (CaDPA) through the SpoVA transport complex.
  • CaDPA release from spore core activates cortex peptidoglycan hydrolysis RO:0002213

    Released CaDPA acts as a signal activating germination-specific cortex-lytic enzymes to begin cortex degradation.

    • DOI:10.1128/mbio.02220-23 Ca-DPA release acts as a signal for a germination-specific cortex-lytic enzyme to begin cortex degradation.
  • cortex peptidoglycan hydrolysis causes core rehydration and outgrowth biolink:causes

    Once the cortex is hydrolyzed, the core can fully expand and rehydrate, enabling outgrowth.

    • DOI:10.1128/mbio.02220-23 Once the cortex is hydrolyzed, the core can fully expand and rehydrate, allowing full metabolic capabilities and initiation of outgrowth; broadly supported across endospore formers.
  • core rehydration and outgrowth enables spore germination RO:0002327

    Core rehydration and outgrowth complete realization of the spore-germination trait.

    • DOI:10.1128/mbio.02220-23 Core rehydration following cortex hydrolysis allows full metabolic capabilities and initiation of outgrowth, completing germination.

Provenance

Source
METPO (2025-11-25)
Definition source
DOI:10.1016/j.mib.2003.10.001

Parent traits (1)

Synonyms (1)

  • germination RELATED_SYNONYM · DOI:10.1016/j.mib.2003.10.001

kg-microbe context

Matched 1 kg-microbe node via parent_proxy.

  • METPO:1000059 [-2.682, -2.070, -3.656, -0.652, …]

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. · PROPOSED_FROM_RESEARCH · claude

    Proposed candidate PHYSIOLOGY trait (spore germination), the physiological exit from spore dormancy; complements the morphological sporulation/spore-forming traits.

  2. · CURATED_CAUSAL_GRAPH · claude

    Added evidence-backed causal graph (germinant-triggered germination) with GO node grounding and biolink/RO predicate groundings; promoted PROPOSED to REVIEWED.

  3. · ENRICH_CAUSAL_GRAPH · claude

    Added 4 evidence-backed generic edges (3 new nodes) from the deep-research report, extending the downstream germination cascade (CaDPA release -> cortex hydrolysis -> core rehydration/outgrowth -> trait).

  4. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 4 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (biolink:causes×2, RO:0002213×1, RO:0002327×1).