identifier: traitmech:000555 label: CARD-NLR GasderMIN system definition: A CARD-NLR system in which an organism possesses a genome-encoded DefenseFinder CARD_NLR_GasderMIN subtype locus represented by the CARD_NLR_GasderMIN rule row requiring the GasderMIN__bGSDM profile. definition_source: DOI:10.1101/2023.05.28.542683 trait_category: GENOMICS term_kind: CLASS mapping_status: PROPOSED parent_traits: - traitmech:000337 synonyms: - synonym_text: CARD_NLR_GasderMIN synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv - synonym_text: GasderMIN__bGSDM synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv - synonym_text: CARD_NLR__CARD_Protease synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv - synonym_text: CARD_NLR__NLR_new synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv - synonym_text: CARD_NLR__Trypsin synonym_type: RELATED_SYNONYM source: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv evidence: - reference: https://europepmc.org/article/PPR/PPR668921 snippet: Here we show that CARD-like domains are present in defense systems that protect bacteria against phage. notes: Wein et al. support bacterial CARD-like domains as parts of anti-phage defense systems. - reference: https://europepmc.org/article/PPR/PPR668921 snippet: The bacterial CARD is essential for protease-mediated activation of certain bacterial gasdermins, which promote cell death once phage infection is recognized. notes: Wein et al. support bacterial CARD-dependent activation of phage-triggered gasdermin cell-death effectors. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md snippet: '| CARD_NLR | 10\.1101/2023\.05\.28\.542683 | CARD-like domains mediate anti-phage defense in bacterial gasdermin systems | ' notes: The pinned DefenseFinder article registry maps the CARD_NLR model namespace to the Wein et al. CARD-like-domain anti-phage defense preprint. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| GasderMIN__bGSDM | GasderMIN__bGSDM___bGSDM | GasderMIN | Custom | 50 |' notes: The pinned DefenseFinder HMM inventory records the GasderMIN__bGSDM profile reused as mandatory by the CARD_NLR_GasderMIN rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "CARD_NLR\tCARD_NLR_GasderMIN\t1\t3\tGasderMIN__bGSDM\tCARD_NLR__CARD_Protease,\ \ CARD_NLR__NLR_new, CARD_NLR__Trypsin\tCARD_NLR__Endonuclease, CARD_NLR__Endonuclease_new,\ \ CARD_NLR__Phospho, CARD_NLR__Phospho_Trypsin, CARD_NLR__Subtilase, CARD_NLR__Subtilase_long_new,\ \ CARD_NLR__Subtilase_small_new, CARD_NLR__Trypsin_Phospho, CARD_NLR__Trypsine_Endonuclease_new\t" notes: The pinned DefenseFinder rules table models CARD_NLR_GasderMIN as a CARD_NLR subsystem requiring GasderMIN__bGSDM with CARD_Protease, NLR_new, and Trypsin accessory profiles. causal_graphs: - graph_id: card_nlr_gasdermin_locus_subtype_defense title: CARD-NLR GasderMIN loci mark a CARD-NLR antiphage subtype description: Conservative subtype-level sketch linking a DefenseFinder CARD_NLR_GasderMIN locus to CARD-like gasdermin anti-phage defense and CARD-NLR GasderMIN system possession. scope_status: NONMECHANISTIC scope_notes: The graph captures the CARD_NLR_GasderMIN subtype at DefenseFinder rule-row level without asserting the exact phage trigger, native host breadth, CARD-to-gasdermin activation sequence, bGSDM cleavage route, or whether every DefenseFinder CARD_NLR_GasderMIN prediction is a complete experimentally active locus. nodes: - node_id: card_nlr_gasdermin_locus label: CARD-NLR GasderMIN locus node_type: GENETIC_ELEMENT description: A DefenseFinder CARD_NLR_GasderMIN subtype locus represented by the GasderMIN__bGSDM mandatory profile and generic CARD_NLR accessory profiles. - node_id: card_like_gasdermin_antiphage_defense label: CARD-like gasdermin antiphage defense node_type: BIOLOGICAL_PROCESS description: Anti-phage defense mediated by bacterial CARD-like activation of a gasdermin cell-death effector. - node_id: card_nlr_gasdermin_system_trait label: CARD-NLR GasderMIN system node_type: TRAIT grounding: traitmech:000555 description: Possession of a genome-encoded CARD-NLR GasderMIN phage-defense system. - node_id: card_nlr_system_trait label: CARD-NLR system node_type: TRAIT grounding: traitmech:000337 description: Possession of a genome-encoded CARD-NLR phage-defense system. edges: - subject: card_nlr_gasdermin_locus predicate: contributes to predicate_id: RO:0002326 object: card_like_gasdermin_antiphage_defense description: CARD_NLR_GasderMIN loci are represented in DefenseFinder by a GasderMIN__bGSDM mandatory profile plus CARD_NLR accessory profiles. evidence: - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| GasderMIN__bGSDM | GasderMIN__bGSDM___bGSDM | GasderMIN | Custom | 50 |' notes: The pinned DefenseFinder HMM inventory records the GasderMIN__bGSDM profile reused as mandatory by the CARD_NLR_GasderMIN rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "CARD_NLR\tCARD_NLR_GasderMIN\t1\t3\tGasderMIN__bGSDM\tCARD_NLR__CARD_Protease,\ \ CARD_NLR__NLR_new, CARD_NLR__Trypsin\tCARD_NLR__Endonuclease, CARD_NLR__Endonuclease_new,\ \ CARD_NLR__Phospho, CARD_NLR__Phospho_Trypsin, CARD_NLR__Subtilase, CARD_NLR__Subtilase_long_new,\ \ CARD_NLR__Subtilase_small_new, CARD_NLR__Trypsin_Phospho, CARD_NLR__Trypsine_Endonuclease_new\t" notes: The pinned DefenseFinder rules table models CARD_NLR_GasderMIN as a CARD_NLR subsystem requiring GasderMIN__bGSDM with CARD_Protease, NLR_new, and Trypsin accessory profiles. - subject: card_like_gasdermin_antiphage_defense predicate: confers predicate_id: METPO:2007700 object: card_nlr_gasdermin_system_trait description: The first-pass CARD-NLR GasderMIN system trait is realized by a DefenseFinder CARD_NLR_GasderMIN subtype locus. evidence: - reference: https://europepmc.org/article/PPR/PPR668921 snippet: Here we show that CARD-like domains are present in defense systems that protect bacteria against phage. notes: Wein et al. support bacterial CARD-like domains as parts of anti-phage defense systems. - reference: https://europepmc.org/article/PPR/PPR668921 snippet: The bacterial CARD is essential for protease-mediated activation of certain bacterial gasdermins, which promote cell death once phage infection is recognized. notes: Wein et al. support bacterial CARD-dependent activation of phage-triggered gasdermin cell-death effectors. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "CARD_NLR_GasderMIN\t1\t3\tGasderMIN__bGSDM\tCARD_NLR__CARD_Protease,\ \ CARD_NLR__NLR_new, CARD_NLR__Trypsin" notes: The pinned DefenseFinder rules table models CARD_NLR_GasderMIN as a CARD_NLR subsystem requiring GasderMIN__bGSDM with CARD_Protease, NLR_new, and Trypsin accessory profiles. - subject: card_nlr_gasdermin_system_trait predicate: is a predicate_id: rdfs:subClassOf object: card_nlr_system_trait description: CARD-NLR GasderMIN system possession is a CARD-NLR-system trait. evidence: - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md snippet: '| CARD_NLR | 10\.1101/2023\.05\.28\.542683 | CARD-like domains mediate anti-phage defense in bacterial gasdermin systems | ' notes: The pinned DefenseFinder article registry maps the CARD_NLR model namespace to the Wein et al. CARD-like-domain anti-phage defense preprint. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "CARD_NLR\tCARD_NLR_GasderMIN\t1\t3\tGasderMIN__bGSDM" notes: The pinned DefenseFinder rules table places the CARD_NLR_GasderMIN subsystem under the CARD_NLR system key and requires GasderMIN__bGSDM. discussions: - discussion_id: card-nlr-gasdermin-activity-gap prompt: Resolve the CARD_NLR_GasderMIN phage triggers, native hosts, gasdermin proteolysis route, CARD-to-gasdermin activation sequence, and profile-to-activity criteria before minting protease, trigger, or component children. kind: KNOWLEDGE_GAP status: OPEN rationale: Wein et al. support CARD-like anti-phage gasdermin defense, the pinned DefenseFinder HMM inventory supports GasderMIN__bGSDM as a bGSDM profile, and the pinned DefenseFinder rules table supports CARD_NLR_GasderMIN as a rule-row subtype requiring GasderMIN__bGSDM. This first-pass record leaves exact phage triggers, native hosts, CARD-to-gasdermin activation, bGSDM proteolysis route, and profile-to-activity criteria unresolved. evidence: - reference: https://europepmc.org/article/PPR/PPR668921 snippet: The bacterial CARD is essential for protease-mediated activation of certain bacterial gasdermins, which promote cell death once phage infection is recognized. notes: Wein et al. support bacterial CARD-dependent activation of phage-triggered gasdermin cell-death effectors. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md snippet: '| GasderMIN__bGSDM | GasderMIN__bGSDM___bGSDM | GasderMIN | Custom | 50 |' notes: The pinned DefenseFinder HMM inventory records the GasderMIN__bGSDM profile reused as mandatory by the CARD_NLR_GasderMIN rule row. - reference: https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv snippet: "CARD_NLR\tCARD_NLR_GasderMIN\t1\t3\tGasderMIN__bGSDM\tCARD_NLR__CARD_Protease,\ \ CARD_NLR__NLR_new, CARD_NLR__Trypsin\tCARD_NLR__Endonuclease, CARD_NLR__Endonuclease_new,\ \ CARD_NLR__Phospho, CARD_NLR__Phospho_Trypsin, CARD_NLR__Subtilase, CARD_NLR__Subtilase_long_new,\ \ CARD_NLR__Subtilase_small_new, CARD_NLR__Trypsin_Phospho, CARD_NLR__Trypsine_Endonuclease_new\t" notes: The pinned DefenseFinder rules table models CARD_NLR_GasderMIN as a CARD_NLR subsystem requiring GasderMIN__bGSDM with CARD_Protease, NLR_new, and Trypsin accessory profiles. attaches_to: - causal_graphs#card_nlr_gasdermin_locus_subtype_defense posed_by: codex posed_date: '2026-10-02' curation_history: - timestamp: '2026-10-02T21:05:00Z' curator: codex action: MINTED_TRAITMECH_ID changes: Minted CARD-NLR GasderMIN system as a DOI- and DefenseFinder-backed GENOMICS TraitRecord under the CARD-NLR system parent after an ignored-and-hidden duplicate review found no exact live TraitMech, METPO, history, or prior proposal record for the target local ID, placeholder METPO ID, proposal cohort, record slug, or human label; existing CARD_NLR_GasderMIN mentions were scoped to CARD-NLR parent or GasderMIN evidence, not an exact child TraitRecord, and the replacement placeholder is reserved in proposals/metpo_traitmech_v432. llm_assisted: true - timestamp: '2026-10-02T21:05:02Z' curator: codex action: REVIEW_CANONICAL_EXAMPLE_EVIDENCE_GAP changes: Reviewed CARD-NLR GasderMIN system during initial curation and left canonical_examples empty because Wein et al. and the pinned DefenseFinder tables support CARD-like anti-phage gasdermin defense and the CARD_NLR_GasderMIN rule row but not an accession-backed native microbial taxon exemplar tied to CARD_NLR_GasderMIN profiles and experimentally verified endogenous activity. No paid research was used. llm_assisted: true