plant pathogen

METPO:1004003 · CLASS · REVIEWED

A pathogen that infects organisms in the kingdom Viridiplantae.

Plant-pathogen T3SS-effector and wall-degradation program

DOI-backed graph linking plant-cell-wall degradation, type III secretion of effectors, suppression of plant immunity, and plant tissue colonization to the plant-pathogen phenotype.

Plant-pathogen T3SS-effector and wall-degradation program Interactive directed graph showing evidence-backed causal relationships for plant pathogen.

Edge evidence

  • plant-cell-wall-degrading enzymes enables plant tissue colonization RO:0002327

    Plant-cell-wall-degrading enzymes enable bacterial spread within plant tissues.

    • DOI:10.1146/annurev.micro.55.1.535 cell-wall-degrading enzymes Supports CWD enzymes as virulence factors in plant infection.
  • type III secretion system delivers T3SS effector proteins

    The T3SS translocates effector proteins from the bacterium into plant cells.

    • DOI:10.1146/annurev.phyto.43.040204.135923 type III secretion system Supports the T3SS as the delivery system for bacterial effectors into plant cells.
  • T3SS effector proteins suppresses plant immune suppression RO:0002212

    Translocated T3SS effectors suppress plant innate immunity.

    • DOI:10.1146/annurev.phyto.43.040204.135923 effector proteins Supports T3SS-delivered effector proteins as the plant-immunity-suppressing factors.
  • plant immune suppression enables plant tissue colonization RO:0002327

    Immune suppression supports sustained colonization of plant tissues.

    • DOI:10.1146/annurev.phyto.43.040204.135923 plant pathogen Supports immune-suppression-driven colonization as a hallmark of plant-pathogen infection biology.
  • plant tissue colonization causes plant disease biolink:causes

    Established colonization of plant tissues causes plant disease.

    • DOI:10.1146/annurev.micro.55.1.535 cell-wall-degrading enzymes Supports colonization-to-disease progression in plant pathogens.
  • plant disease manifests as plant pathogen METPO:2007400

    Plant disease manifests the plant-pathogen trait.

    • DOI:10.1146/annurev.phyto.43.040204.135923 type III secretion Supports the trait endpoint.
  • quorum sensing positively regulates biofilm formation

    Quorum sensing is required for cooperative biofilm formation in plant-pathogenic bacteria.

    • DOI:10.3390/plants12112207 QS is required for cooperative biofilm formation and regulates toxins, enzymes, EPS, and virulence factors.
  • quorum sensing positively regulates exopolysaccharide production

    Quorum sensing and c-di-GMP signaling positively regulate exopolysaccharide biosynthesis.

    • DOI:10.3390/plants12112207 EPS such as amylovoran, levan, xanthan, stewartan, and cellulose are often regulated by intracellular c-di-GMP and QS.
  • exopolysaccharide production enables biofilm formation RO:0002327

    Exopolysaccharide production builds the biofilm matrix enabling biofilm formation.

    • DOI:10.3390/plants12112207 EPS form the matrix of cooperative biofilms in plant-pathogenic bacteria.
  • plant-cell-wall-degrading enzymes degrades plant cell wall METPO:2000007

    Secreted cell-wall-degrading enzymes degrade the plant cell wall.

    • DOI:10.21608/mb.2024.307263.1134 Secretion of cell-wall-degrading enzymes (pectinase, chitinase, cellulase, protease) that enable invasion and colonization.
  • ER-Golgi apoplastic effector secretion delivers apoplastic effectors

    The conventional ER-Golgi secretory pathway delivers apoplastic effectors.

    • DOI:10.1094/MPMI-12-23-0212-CR Apoplastic effectors are secreted via the conventional endoplasmic reticulum (ER)-Golgi pathway.
  • apoplastic effectors suppresses plant immune suppression RO:0002212

    Secreted apoplastic effectors contribute to suppression of plant immunity during infection.

    • DOI:10.1094/MPMI-12-23-0212-CR Apoplastic effectors delivered to the host act to subvert plant defenses and permit infection.

Provenance

Source
METPO (2025-11-25)
Definition source
DOI:10.1146/annurev.phyto.43.040204.135923

kg-microbe context

Matched 1 kg-microbe node via direct_metpo.

  • METPO:1004003 [+6.432, -2.221, -31.218, +2.228, …]

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 causal graph linking plant-cell-wall-degrading enzymes, T3SS effector delivery, immune suppression, plant tissue colonization, and disease to the plant-pathogen trait.

  3. · GROUND_CAUSAL_PREDICATES · claude

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

  4. · GROUND_CAUSAL_PREDICATES · claude

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

  5. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2007400×1).

  6. · RENAME_PREDICATE_LABELS · claude

    Renamed 1 causal-edge predicate label(s) to align with existing groundings: supports → enables ×1.

  7. · GROUND_CAUSAL_PREDICATES · claude

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

  8. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002212×1).

  9. · REMOVE_REDUNDANT_SYNONYM · claude

    Removed 1 synonym(s) whose text duplicated the label (seeder redundancy; no information lost).

  10. · ENRICH_CAUSAL_GRAPH · claude

    Added 6 evidence-backed generic edges (6 new nodes) from the deep-research report.

  11. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 2 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (RO:0002327×1, RO:0002212×1).

  12. · GROUND_CAUSAL_NODES · claude

    Grounded 4 causal-node grounding field(s) via mappings/node_grounding.tsv (GO:0140649×1, GO:0009372×1, GO:0042710×1, GO:0009505×1).

  13. · GROUND_CAUSAL_PREDICATES · claude

    Grounded 1 causal-edge predicate_id field(s) via mappings/predicate_grounding.tsv (METPO:2000007×1).