The Place of S Genotype of Mycobacterium Tuberculosis Which is Endemic to the Republic of Sakha (Yakutia), in the Global Phylogeny according to Results of Whole-Genome Sequencing
Bibliographic record
Abstract
The objective: to assess the stability of circulation of S genotype and S-like strains of M. tuberculosis (MTB) in the Republic of Sakha (Yakutia) over a 12-year period and perform their phylogenetic identification relative to the L4.4 Euro-American subline. Subjects and Methods. Between 2009 and 2022, 513 MTB strains isolated from pulmonary tuberculosis patients were studied using molecular genetic methods. 92 isolates belonging to S genotype or having an S-like genetic profile were found. Whole-genome sequencing of five strains of S genotype that circulated in the territory of the Republic of Sakha (Yakutia) in 2020-2022 was carried out. A global phylogenetic analysis was performed and evolutionary relationship of the obtained genomes was determined, a RT-PCR test was developed for the rapid detection of S genotype strains. Results. In the territory of the Republic of Sakha (Yakutia), there is a stable circulation of S and S-like MTB genotypes belonging to the L4.4 Euro-American subline, the L4.4.1.1 subtype. The evolutionary model has confirmed the previously stated hypothesis that the spread of the S genotype among the indigenous population of Yakutia is associated with mass exposure to the Russian settlers which started from the beginning of the 17th century. Conclusion. Spread of MTB strains of the L4.4 Euro-American subline, L4.4.1.1 subtype, among the indigenous populations of New Zealand, Canada and Yakutia in the 17th-19th centuries is very similar.
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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 | 0.000 |
| 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 | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| 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".