Characterization of <i>Allobodo yubaba</i> sp. nov. and <i>Novijibodo darinka</i> gen. et sp. nov., cultivable free‐living species of the phylogenetically enigmatic kinetoplastid taxon Allobodonidae
Bibliographic record
Abstract
Kinetoplastids are a large and diverse protist group, spanning ecologically important free-living forms to medically important parasites. The taxon Allobodonidae holds an unresolved position within kinetoplastids, and the sole described species, Allobodo chlorophagus, is uncultivated, being a necrotroph/parasite of macroalgae. Here we describe Allobodo yubaba sp. nov. and Novijibodo darinka gen. nov. et sp. nov., both free-living bacterivores isolated into monoeukaryotic cultures. Electron microscopy shows that both A. yubaba and N. darinka have a microtubular prism in the feeding apparatus (absent in A. chlorophagus), and an ovoid eukinetoplast, rather than pan-kDNA as in A. chlorophagus. Phylogenetic analyses of SSU rDNA sequences robustly place A. yubaba as the sister to A. chlorophagus, while N. darinka branches separately within Allobodonidae, as a sister group of undescribed freshwater isolates. We view Allobodonidae as containing at least four genus-level clades: Allobodo (A. chlorophagus and A. yubaba n. sp.), an undescribed fresh-water clade, an undescribed marine clade, and now Novijibodo-with N. darinka as its sole known member. Electron microscopy also revealed a rod-shaped gram-negative bacterial cytoplasmic endosymbiont in our N. darinka isolate. The availability of these species in monoeukaryotic culture should facilitate future research, including resolving the position of Allobodonidae using phylogenomic approaches.
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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 | 0.001 | 0.000 |
| Scholarly communication | 0.001 | 0.001 |
| Open science | 0.000 | 0.001 |
| Research integrity | 0.001 | 0.001 |
| Insufficient payload (model declined to judge) | 0.001 | 0.001 |
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".