Data Sheet 5_Laboratory tests for bovine respiratory bacteria and antimicrobial resistance

760 nasopharyngeal swab samples collected from commercial beef feedlots in western Canada were used to evaluate diagnostic tests for bovine respiratory disease pathogens and antimicrobial resistance. The study, authored by Simon J. G. Otto, compares traditional culture, long-read metagenomic sequencing, and recombinase polymerase amplification. It provides estimates of clinical diagnostic performance, including sensitivity and specificity for detecting key bacteria and resistance genes.

Use Cases

• Compare the diagnostic performance of culture, metagenomics, and RPA tests based on sensitivity and specificity estimates provided in the study.
• Analyze patterns of antimicrobial resistance gene detection in feedlot cattle based on the described genotypic and phenotypic AMR data.
• Evaluate the potential for large-scale implementation of long-read metagenomic sequencing for AMR surveillance based on the field evaluation results.

Strengths

• Contains results from 760 respiratory samples, providing a substantial field evaluation.
• Provides specific performance metrics, such as sensitivity below 65% and specificity above 90% for most organisms/tests.
• Represents the first large-scale field evaluation of a specific long-read metagenomic sequencing protocol for this application.

Limitations

• Row count and column-level documentation are absent; field semantics must be inferred after download.
• The dataset is contained in a 586.5 KB PDF, which is a very small and likely summary-level report rather than raw data.
• Data may reflect geographic bias inherent to samples collected only from western Canadian feedlots.

Provenance

Source

Simon J. G. Otto via figshare

Collection Method

Nasopharyngeal swabs collected by private veterinarians as part of Canadian surveillance, analyzed with Bayesian latent class models.

Freshness

Last updated 2026-05-20 05:23:53

Geography

Western Canadian beef feedlots