What this entity is
Canonical name: Mycobacterium tuberculosis. 1
Known aliases: None are stated in the report. 1
Stable external identifier: None is provided in the report. 1
Key facts from the reports
Mycobacterium tuberculosis was one of the deeply sampled case studies in the Environmental Resistome at Pangenome Scale analysis of environmental associations with antimicrobial resistance (AMR). 1
The case study included 6,673 genomes and identified 44 AMR gene clusters. 1 Of these, 4 were core and 40 were accessory, giving an accessory fraction of 91%. 1
The species was clinical-dominant at 98%, meaning that 98% of its sampled genomes were classified as originating from clinical sources in the report’s species-level environmental classification. 1
The PaperBLAST analysis found Mycobacterium tuberculosis H37Rv to be the most literature-linked bacterium in its collection, with 9,079 papers, ahead of Escherichia coli K-12 (8,860) and Pseudomonas aeruginosa PAO1 (5,928). 2 This supports the clinical/model-organism interpretation of the AMR case study while also showing that its literature prominence is not evidence of representative coverage: among 15,312 bacterial organisms, the top 100 captured 44.3% of bacterial literature. 2
The newer Pan-Bacterial AMR Gene Landscape found that clinical species averaged 10.6 AMR clusters per species, versus 4.6 for Soil/Terrestrial species, and that clinical AMR was 30.8% core versus 58.1% for soil AMR. This broader comparison supports the existing interpretation that clinically associated AMR tends to be more accessory and refines it by placing the M. tuberculosis case study within a wider clinical–environmental gradient. 3
The metabolic-capability study reported that M. tuberculosis had 97.4% open and 2.6% core genes in its pangenome, making it the most closed among well-sampled pathogens with more than 2,500 genomes in that comparison. 4 This refines the AMR result: although both the broader pangenome and AMR complement are predominantly accessory by the reported measures, the 91% accessory AMR fraction should not be interpreted as evidence that M. tuberculosis has the most open pangenome. 4,1
Its 91% accessory AMR fraction is consistent with the report’s broader finding that clinically associated species tend to carry predominantly accessory rather than core AMR, although this case study is observational and the report cautions that sampling and annotation biases limit causal interpretation. 1
The result contributes to the report’s environmental-resistome synthesis and its pangenome-integration analysis of core/accessory AMR across bacterial species. 1