SDIC1 system

traitmech:000420 · CLASS · PROPOSED

A phage defense system in which an organism possesses an SDIC1 locus encoding a TIR-domain SDIC1A component and a ubiquitin-ligase-like SDIC1B component that can provide population-wide immunity against bacteriophages.

Trait evidence (6)

DOI:10.1016/j.celrep.2024.115055
four newly identified anti-phage systems

Cummins et al. identify SDIC1 in a cohort of Serratia defense-island candidate systems with anti-phage activity.
DOI:10.1016/j.celrep.2024.115055
previously unreported Toll/interleukin (IL)-1 receptor (TIR)-domain-containing system with population-wide immunity

Cummins et al. support SDIC1 as a TIR-domain-containing phage-defense system with a population-wide immunity phenotype.
DOI:10.1016/j.celrep.2024.115055
SDIC1 combines TIR and ubiquitin ligase

Cummins et al. connect the SDIC1 system with TIR and ubiquitin-ligase-like components.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md
SDIC1 | 10\.1016/j\.celrep\.2024\.115055 | Multi-conflict islands are a widespread trend within Serratia spp

The pinned DefenseFinder article registry maps the SDIC1 source key to the Cummins et al. Serratia multi-conflict-island paper.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| SDIC1__SDIC1A | | SDIC1 | Custom | 350 |

The pinned DefenseFinder HMM inventory records SDIC1__SDIC1A as a custom SDIC1 profile.
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| SDIC1__SDIC1B | | SDIC1 | Custom | 130 |

The pinned DefenseFinder HMM inventory records SDIC1__SDIC1B as a custom SDIC1 profile.

SDIC1 loci confer bacterial phage defense

Conservative system-level sketch linking the SDIC1 locus to population-wide immunity against bacteriophages.

NONMECHANISTIC · The graph captures SDIC1 as a named anti-phage system with SDIC1A and SDIC1B DefenseFinder profiles while leaving natural host breadth, sensitive-phage breadth, the exact SDIC1A/SDIC1B profile-to-protein correspondence, the direct trigger, the ubiquitination substrate, and rule-level detection criteria unresolved.

Edge evidence

SDIC1 locus contributes to population-wide anti-phage immunity RO:0002326
The SDIC1 locus contributes to population-wide immunity against bacteriophages.
- DOI:10.1016/j.celrep.2024.115055 previously unreported Toll/interleukin (IL)-1 receptor (TIR)-domain-containing system with population-wide immunity Cummins et al. report population-wide immunity for the SDIC1 TIR-domain system.
- DOI:10.1016/j.celrep.2024.115055 SDIC1 combines TIR and ubiquitin ligase Cummins et al. place TIR and ubiquitin-ligase-like activities in the SDIC1 system.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | SDIC1__SDIC1A | | SDIC1 | Custom | 350 | The pinned DefenseFinder HMM inventory records SDIC1__SDIC1A as a custom SDIC1 profile.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md | SDIC1__SDIC1B | | SDIC1 | Custom | 130 | The pinned DefenseFinder HMM inventory records SDIC1__SDIC1B as a custom SDIC1 profile.
population-wide anti-phage immunity confers SDIC1 system METPO:2007700
SDIC1-mediated anti-phage immunity realizes the SDIC1 system trait.
- DOI:10.1016/j.celrep.2024.115055 four newly identified anti-phage systems Cummins et al. identify SDIC1 in the newly reported anti-phage system cohort.
SDIC1 system is a phage defense system rdfs:subClassOf
SDIC1 system possession is a phage-defense-system trait.
- DOI:10.1016/j.celrep.2024.115055 four newly identified anti-phage systems Cummins et al. identify SDIC1 among anti-phage systems.
- https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md SDIC1 | 10\.1016/j\.celrep\.2024\.115055 | Multi-conflict islands are a widespread trend within Serratia spp The pinned DefenseFinder article registry maps the SDIC1 source key to the Cummins et al. Serratia multi-conflict-island paper.

Provenance

Identifier source: TraitMech local identifier
Definition source: DOI:10.1016/j.celrep.2024.115055

Parent traits (1)

phage defense system traitmech:000209

Synonyms (3)

SDIC1 EXACT_SYNONYM · DOI:10.1016/j.celrep.2024.115055
SDIC1__SDIC1A RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
SDIC1__SDIC1B RELATED_SYNONYM · https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md

kg-microbe context

No kg-microbe node embedding matched this record in the 2026-04-25 deepwalk.

Discussions and Knowledge Gaps (1)

Open questions attached to this trait. Seeded by just knowledge-gap-scan and curated; see the corpus-wide index.

Resolve SDIC1 natural host breadth, SDIC1A/SDIC1B component functions, phage triggers, ubiquitination substrates, population-immunity mechanism, and rule-level detection criteria before minting narrower SDIC1 mechanism children.

KNOWLEDGE GAP OPEN sdic1-defensefinder-model-gap · raised by codex · 2026-09-27

Attached to causal_graphs#sdic1_locus_restricts_phage

Cummins et al. support SDIC1 as a TIR-domain-containing anti-phage system with a ubiquitin-ligase-like component, and the pinned DefenseFinder HMM inventory records SDIC1A and SDIC1B profile rows. The pinned rules table has no SDIC1 row, and the first-pass record does not resolve natural host breadth, sensitive-phage breadth, the exact profile-to-component mapping, phage triggers, the direct TIR-dependent output, or the ubiquitination substrate.

Evidence

DOI:10.1016/j.celrep.2024.115055
previously unreported Toll/interleukin (IL)-1 receptor (TIR)-domain-containing system with population-wide immunity
DOI:10.1016/j.celrep.2024.115055
SDIC1 combines TIR and ubiquitin ligase
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/List_system_article.md
SDIC1 | 10\.1016/j\.celrep\.2024\.115055 | Multi-conflict islands are a widespread trend within Serratia spp
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| SDIC1__SDIC1A | | SDIC1 | Custom | 350 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/Liste_hmm_system.md
| SDIC1__SDIC1B | | SDIC1 | Custom | 130 |
https://raw.githubusercontent.com/mdmparis/defense-finder-models/afb0e5a8b466be53586b13266f5d38d98c3ac268/DefenseFinder_rules.tsv

Curation history

2026-09-27T22:49:28Z · MINTED_TRAITMECH_ID · codex
Minted SDIC1 system as a DOI-backed GENOMICS TraitRecord under phage defense system after an ignored-and-hidden duplicate review found no exact live TraitMech, METPO, history, or prior proposal record; kept the graph at candidate-locus level because the pinned DefenseFinder SDIC1 HMM rows are not backed by a rules row; proposals/metpo_traitmech_v297 reserves the replacement placeholder.