AMMI Canada – CACMID Annual Conference
Bibliographic record
Abstract
Objectives: Campylobacter (C) is a common human enteropathogen.Published data on susceptibility rates from human Canadian Campylobacter isolates is scarce.We analyzed the characteristics of a 38 month cohort of Campylobacter strains isolated from stool specimens in a New Brunswick regional laboratory.We also present the susceptibility data of a subset of C jejuni isolates to ciprofloxacin (cip) and erythromycin (ery).MethOds: We retrieved data from stool cultures collected between August of 2011 and October of 2014 in which Campylobacter was isolated.We used Campylobacter CNA agar as the selective medium.Identification was performed using published methods.Isolates not identified as C jejuni sp jejuni or C coli were identified by sequencing of the cpn60 gene at a reference laboratory.Susceptibility of C jejuni to cip and ery was determined by Kirby-Bauer (KB) since May of 2013, using criteria described by Gaudreau.Travel history was obtained from New Brunswick public health.Results: Campylobacter was isolated in 2.1% of samples.82 separate episodes of enteritis were identified.Campylobacter was grown from all samples collected in 85% of enteritis cases.We isolated: C jejuni (72%), C lari (10%), C coli (7%), C upsaliensis (5%), 2% of other species and 4% of isolates not further identified.29 isolates of C jejuni were tested by KB.Resistance to nalidixic acid (na) was seen in 6/7 of cip resistant but in no cip susceptible strains.76% (22/29) of C jejuni isolates were susceptible to cip and 97% (28/29) to ery.Acquisition outside Canada was seen in 5/7 of isolates resistant to cip, but in only 1/22 of cip susceptible ones.Based on a Bayesian analysis with binomial distribution, Beta(1,1) prior and 10,000 simulations, there was a 99.99% probability that the percentage of resistant cases to cip was higher for contamination outside Canada.cOnclusiOns: C jejuni and C lari are the most common species isolated in our laboratory.Most cases of C jejuni resistant to cip in our area are acquired outside Canada.Macrolides such as azithromycin are the therapeutic agents of choice in New Brunswick, especially if the infection is acquired outside Canada.
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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 | 0.002 | 0.001 |
| Meta-epidemiology (narrow) | 0.001 | 0.000 |
| Meta-epidemiology (broad) | 0.001 | 0.001 |
| Bibliometrics | 0.002 | 0.001 |
| Science and technology studies | 0.004 | 0.001 |
| Scholarly communication | 0.005 | 0.001 |
| Open science | 0.002 | 0.003 |
| Research integrity | 0.003 | 0.002 |
| Insufficient payload (model declined to judge) | 0.389 | 0.104 |
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".