First Isolation and Genomic Characterization of Escherichia ruysiae in Togo from a Five-Year-Old Patient with Gastroenteritis and Bloody Diarrhea
Bibliographic record
Abstract
Escherichia ruysiae is a recently characterized species within the Escherichia genus, often misclassified as E. coli due to limitations in existing operating procedures and diagnostic databases. In this study, we report the first isolation and genomic characterization of E. ruysiae in Togo, from a five-year-old female patient who was hospitalized with gastroenteritis and bloody diarrhea and subsequently died after eight days. Biochemical tests and MALDI-TOF initially identified the microorganism as E. coli, but phylogenomic and Average Nucleotide Identity (ANI) analysis confirmed it to be E. ruysiae, Clade IV with enteroaggregative associated genes. Whole genome sequencing of the strain FK53-34 enables the identification of resistance genes, including blaEC-15, eptA, and pmrF. The virulence profile of the strain included, but was not limited to aap, aatABC, and senB genes, which may support its pathogenicity and virulence. Multilocus sequence typing (MLST) did not match any known sequence type, which is obvious for a newly characterized microorganism. This study highlights the critical need for enhanced diagnostic tools and surveillance systems to identify emerging pathogens, including Escherichia ruysiae.
Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.
How this classification was reachedexpand
Full frame machine prediction
Teacher imitationNot calibrated prevalence, not ground truth. Human validation pending. The Gemma side is a direct model label for every work in the frame, read from the title-only record. The Codex side is a classifier learned from the 10,348 direct Codex labels and calibrated to design-weighted sample rates; fields without enough sample support carry no Codex call. Candidate is the union of the two sides; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels.
Distilled classifier scores by category (both heads)
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.001 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.001 | 0.000 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 0.000 |
Machine scores (provisional)
The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.
Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.
score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from itClassification
machine, unvalidatedMachine predicted; a candidate call from one source (direct Gemma or distilled Codex), not a consensus.
How this classification was reached, model by model and score by score, is at the end of the page under "How this classification was reached".