4,000-year-old Mycobacterium lepromatosis genomes from Chile reveal long establishment of Hansen’s disease in the Americas
Bibliographic record
Abstract
Mycobacterium lepromatosis is a recently identified cause of Hansen's disease, and is associated with the more severe and potentially lethal presentations of diffuse lepromatous leprosy and Lucio's phenomenon. Detection of this infection has been limited to a small number of individuals, leaving much to be learned about its global distribution and transmissibility. Its discovery in wild rodent populations in the United Kingdom and Ireland also raises questions about its zoonotic potential. Here, we raise further awareness of this disease via analyses of two exceptionally well preserved M. lepromatosis genomes obtained from 4,000-year-old human remains of two adult males from the archaeological sites of El Cerrito and La Herradura in Northern Chile. This formed the basis of genomic comparisons between ancient and modern forms of the pathogen. We demonstrate an unexpected long history of M. lepromatosis in the Americas, which contrasts with the more recent Eurasian history of the closely related Mycobacterium leprae. We offer relevant perspectives on its evolution while providing an incentive for further disease monitoring in both humans and other potential reservoir species in the Americas and elsewhere.
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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 | 0.000 | 0.001 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.001 | 0.001 |
| Science and technology studies | 0.000 | 0.000 |
| Scholarly communication | 0.001 | 0.000 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.000 | 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".