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Record W3092583924 · doi:10.1016/s2666-5247(20)30145-2

Mycobacterium orygis: a zoonosis, zooanthroponosis, or both? – Authors' reply

2020· letter· en· W3092583924 on OpenAlex

Why this work is in the frame

A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.

affAt least one author lists a Canadian institution in the pinned OpenAlex snapshot.
fundA Canadian funder is recorded on the work.
aboutThe title or abstract carries a Canadian signal from the geographic lexicon.

Bibliographic record

VenueThe Lancet Microbe · 2020
Typeletter
Languageen
FieldMedicine
TopicTuberculosis Research and Epidemiology
Canadian institutionsMcGill University Health Centre
FundersCanadian Institutes of Health ResearchBill and Melinda Gates Foundation
KeywordsZoonosisTransmission (telecommunications)Mycobacterium bovisTuberculosisBiologyMycobacterium tuberculosis complexLivestockWildlifeMycobacterium tuberculosisZoologyGeographyVirologyEcologyMedicinePathology

Abstract

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We thank Sven David Charles Parsons for highlighting the many unknowns concerning zoonotic tuberculosis and Mycobacterium orygis. We concur with the assessment that the evidence from the literature, including our Article,1Duffy SC Srinivasan S Schilling MA et al.Reconsidering Mycobacterium bovis as a proxy for zoonotic tuberculosis: a molecular epidemiological surveillance study.Lancet Microbe. 2020; 1: e66-e73Summary Full Text Full Text PDF PubMed Scopus (25) Google Scholar precludes a definitive understanding of whether M orygis is a marker of zoonosis, zooanthoponosis, or both. Whether cattle or humans (or other species, such as oryxes) serve as reservoir hosts for M orygis is unknown, highlighting the need for genomic epidemiological investigations to refine our understanding of the transmission dynamics of this pathogen. This is not only the case for M orygis, definitive knowledge of reservoir host and host-range remain unknown for most of the animal-associated lineages within the Mycobacterium tuberculosis complex, including those that have been reported to infect and cause tuberculosis in humans.2Rodríguez S Bezos J Romero B et al.Mycobacterium caprae infection in livestock and wildlife, Spain.Emerg Infect Dis. 2011; 17: 532-535Crossref PubMed Scopus (82) Google Scholar, 3Jurczynski K Lyashchenko KP Gomis D Moser I Greenwald R Moisson P Pinniped tuberculosis in Malayan tapirs (Tapirus indicus) and its transmission to other terrestrial mammals.J Zoo Wildl Med. 2011; 42: 222-227Crossref PubMed Scopus (22) Google Scholar Parsons notes there is no published evidence of direct animal to human transmission of M orygis. We add that there are no reports of human to human transmission of M orygis either. Accumulating evidence suggests that M orygis, like many other members of the M tuberculosis complex, is a multispecies pathogen.4Rahim Z Thapa J Fukushima Y et al.Tuberculosis Caused by Mycobacterium orygis in dairy cattle and captured monkeys in Bangladesh: a new scenario of tuberculosis in south Asia.Transbound Emerg Dis. 2017; 64: 1965-1969Crossref PubMed Scopus (26) Google Scholar Parsons cites that most M orygis cases are reported from humans and a variety of animals in captivity; but it remains unclear whether this reflects a sampling bias because free-living animals are also reported to be infected.5Thapa J Paudel S Sadaula A et al.Mycobacterium orygis–associated tuberculosis in free-ranging rhinoceros, Nepal, 2015.Emerg Infect Dis. 2016; 22: 570-572Crossref PubMed Scopus (19) Google Scholar Therefore, the host range of M orygis is not fully defined. This highlights a need for comprehensive genomic epidemiology investigations to establish the host range of M orygis and other animal-lineage members of the M tuberculosis complex and determine their potential for zoonotic and or zooanthroponotic infection in regions where they are endemic. As reflected by the title, the central message of our Article was to broaden the operational definition of zoonotic tuberculosis to include any animal lineage M tuberculosis complex subspecies capable of causing human disease.1Duffy SC Srinivasan S Schilling MA et al.Reconsidering Mycobacterium bovis as a proxy for zoonotic tuberculosis: a molecular epidemiological surveillance study.Lancet Microbe. 2020; 1: e66-e73Summary Full Text Full Text PDF PubMed Scopus (25) Google Scholar This recommendation was based on the observation of M orygis circulating in both humans and cattle, and the inability to recover M bovis from humans in a region where bovine tuberculosis is endemic with considerable opportunities for zoonotic transmission. This broader definition should sensitise medical and veterinary practitioners and laboratories to the M tuberculosis species that might be associated with zoonotic or zooanthroponotic infections and enable future definitive studies of the important questions raised by Parsons and in our Article. MAB reports grants from the Canadian Institutes for Health Research, during the conduct of this study. VK reports grants from the Bill & Melinda Gates Foundation, during the conduct of this study. All other authors declare no competing interests. Reconsidering Mycobacterium bovis as a proxy for zoonotic tuberculosis: a molecular epidemiological surveillance studyM bovis prevalence in humans is an inadequate proxy of zoonotic tuberculosis. The recovery of M orygis from humans highlights the need to use a broadened definition, including MTBC subspecies such as M orygis, to investigate zoonotic tuberculosis. The identification of M tuberculosis in cattle also reinforces the need for One Health investigations in countries with endemic bovine tuberculosis. Full-Text PDF Open AccessMycobacterium orygis: a zoonosis, zooanthroponosis, or both?Shannon Duffy and colleagues propose that the operational definition of zoonotic tuberculosis should be broadened to include disease caused by Mycobacterium orygis and that human M orygis infection should be regarded as evidence of zoonotic transmission.1 However, although human infection has often been assumed to be of animal origin there is no direct evidence of this.2 Full-Text PDF Open Access

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.

Full frame distilled prediction

Teacher imitation

Not calibrated prevalence, not ground truth. Human validation pending. Learned from the 10,348 direct Codex labels and 10,348 direct Gemma labels. Candidate is the union of thresholded teacher heads; consensus is their intersection. These outputs are machine_predicted_unvalidated and are not human labels or direct frontier model labels.

metaresearch head score (Codex)0.001
metaresearch head score (Gemma)0.002
Version: codex-gemma-dda1882f352aValidation status: machine_predicted_unvalidated
Candidate categoriesMeta-epidemiology (narrow), Research integrity, Insufficient payload (model declined to judge)
Consensus categoriesInsufficient payload (model declined to judge)
DomainCandidate signal: none · Consensus signal: none
Study designCandidate signal: Not applicable · Consensus signal: Not applicable
GenreCandidate signal: Commentary · Consensus signal: Commentary
Teacher disagreement score0.044
Threshold uncertainty score1.000

Codex and Gemma teacher scores by category

CategoryCodexGemma
Metaresearch0.0010.002
Meta-epidemiology (narrow)0.0010.000
Meta-epidemiology (broad)0.0020.001
Bibliometrics0.0000.000
Science and technology studies0.0000.001
Scholarly communication0.0000.000
Open science0.0010.001
Research integrity0.0010.006
Insufficient payload (model declined to judge)0.0030.002

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.

Opus teacher head0.073
GPT teacher head0.345
Teacher spread0.272 · how far apart the two teachers sit on this one work
Validation statusscore_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it