Triple
T22629907
| Position | Surface form | Disambiguated ID | Type / Status |
|---|---|---|---|
| Subject | Roundup Ready crops |
E558519
|
entity |
| Predicate | introducedGeneSource |
P35224
|
FINISHED |
| Object | Agrobacterium tumefaciens strain CP4 |
—
|
NE NERFINISHED |
How this triple was built (4 steps)
Every LLM step that produced this triple, in pipeline order — named-entity classification, the disambiguation choices (the exact options shown, with the pick highlighted), and the generated description. The batch + timestamp of each is in the Provenance table below.
NER
Named-entity recognition
gpt-5-mini
Instruction
Given a phrase, classify it is english named entity (e.g., persons, organizations, works of art) in Latin script, or not (e.g., literals, dates, URLs, verbose phrases). For disambiguation, the statement where the phrase occurs as object is also given. Please return a JSON object with `phrase` (string, the phrase being analyzed) and `is_ne` (boolean, indicating whether the phrase is a Named Entity).
Input
Phrase: Agrobacterium tumefaciens strain CP4 | Statement: [Roundup Ready crops, introducedGeneSource, Agrobacterium tumefaciens strain CP4]
NED1
Entity disambiguation (via context triple)
gpt-5-mini-2025-08-07
Target entity: Agrobacterium tumefaciens strain CP4 Context triple: [Roundup Ready crops, introducedGeneSource, Agrobacterium tumefaciens strain CP4]
-
A.
Xanthomonas
Xanthomonas is a genus of Gram-negative bacteria known primarily for causing a wide range of plant diseases that affect important agricultural crops worldwide.
-
B.
Pectobacterium
Pectobacterium is a genus of plant-pathogenic bacteria known for causing soft rot diseases in a wide range of crops by degrading plant cell walls.
-
C.
Bacillus megaterium
Bacillus megaterium is a large, rod-shaped, non-pathogenic soil bacterium widely used as a model organism and in industrial biotechnology for enzyme and protein production.
-
D.
Medicago
Medicago is a genus of leguminous plants best known for species like alfalfa, which are widely cultivated as high-protein forage crops and for soil improvement through nitrogen fixation.
-
E.
Bradyrhizobium bacteria
Bradyrhizobium bacteria are slow-growing, nitrogen-fixing soil microorganisms that form root nodule symbioses with leguminous plants, helping convert atmospheric nitrogen into a usable form.
- F. None of above. chosen
- G. Unsure - the case is ambiguous/there is not enough information to decide.
NED2
Entity disambiguation (via description)
gpt-5-mini-2025-08-07
Target entity: Agrobacterium tumefaciens strain CP4 Target entity description: Agrobacterium tumefaciens strain CP4 is a soil bacterium variant whose glyphosate-tolerant EPSPS gene is widely used to confer herbicide resistance in genetically engineered Roundup Ready crops.
-
A.
Xanthomonas
Xanthomonas is a genus of Gram-negative bacteria known primarily for causing a wide range of plant diseases that affect important agricultural crops worldwide.
-
B.
Pectobacterium
Pectobacterium is a genus of plant-pathogenic bacteria known for causing soft rot diseases in a wide range of crops by degrading plant cell walls.
-
C.
Bacillus megaterium
Bacillus megaterium is a large, rod-shaped, non-pathogenic soil bacterium widely used as a model organism and in industrial biotechnology for enzyme and protein production.
-
D.
Medicago
Medicago is a genus of leguminous plants best known for species like alfalfa, which are widely cultivated as high-protein forage crops and for soil improvement through nitrogen fixation.
-
E.
Bradyrhizobium bacteria
Bradyrhizobium bacteria are slow-growing, nitrogen-fixing soil microorganisms that form root nodule symbioses with leguminous plants, helping convert atmospheric nitrogen into a usable form.
- F. None of above. chosen
PD
Predicate disambiguation
gpt-5-mini-2025-08-07
Target predicate: introducedGeneSource Context triple: [Roundup Ready crops, introducedGeneSource, Agrobacterium tumefaciens strain CP4]
-
A.
geneticallyManipulatedBy
Indicates that an entity’s genetic material has been altered or modified as a result of actions performed by another specified agent or process.
-
B.
genomeSource
chosen
Indicates the origin or provenance of a genome, specifying where or how the genomic data was obtained.
-
C.
geneticElement
Indicates that one entity is a genetic element (such as a gene, sequence, or structural unit of genetic material) associated with or characterized by the other entity.
-
D.
transgenesisMethod
Indicates the method or technique used to introduce foreign genetic material into an organism’s genome.
-
E.
hasGene
Indicates that an entity possesses or contains a specific gene as part of its genetic makeup.
- F. None of above.
Provenance (3 batches)
The batch behind each pipeline step, in order, with when it ran. Timestamps are batch-level — stages were processed in waves, so the object chain (NER → NED1 → NEDg → NED2) reads in order, but predicate / elicitation batches can sit in a different wave.
| Step | Stage | Batch ID | Status | When |
|---|---|---|---|---|
| creating | Elicitation | batch_69e245467d9881908d6985bd0db7a1f1 |
completed | April 17, 2026, 2:35 p.m. |
| NER | Named-entity recognition | batch_69f16e3febd081909ff21abef1e4035d |
completed | April 29, 2026, 2:34 a.m. |
| PD | Predicate disambiguation | batch_69ee62855558819080da946c7b35a160 |
completed | April 26, 2026, 7:07 p.m. |
Created at: April 17, 2026, 3:02 p.m.