Xenophyophore-associated mitogenomes: genomic investigations of two specimens from the Clarion-Clipperton Zone
Bibliographic record
Abstract
Introduction Xenophyophores are large benthic agglutinated Foraminifera that are a major component of the Clarion-Clipperton Zone megafauna. Methods Two xenophyophore specimens were obtained and submitted to genomic investigations. Results For both specimens, it was possible to obtain a ca. 25 kb circular xenophyophore-associated mitochondrial genome (XAM) showing similar gene contents with other Retaria, with which they are associated by a maximum likelihood multiprotein phylogeny. One of the specimens yielded a complete cluster of nuclear rRNA genes, the first to be obtained from a xenophyophore. Another full cluster of rRNA, likely belonging to Endomyxa parasites, was found within both specimens. Discussion Although the agglutinated nature of xenophyophores currently prevents a definitive conclusion, the mitogenomes obtained may represent the first to be obtained from those foraminifera. Deeper enquiries are required in order to properly ascribe these genomes to their host organism and to clarify the nature of the possibly parasitic Rhizaria associated with the xenophyophores.
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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 | 0.002 | 0.001 |
| Science and technology studies | 0.001 | 0.000 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.001 | 0.000 |
| Insufficient payload (model declined to judge) | 0.002 | 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".