A Multigene Phylogeny for Oecomys (Rodentia: Cricetidae: Sigmodontinae) with Descriptions of New and Revalidated Taxa and a Partial Species-Group Classification
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Bibliographic record
Abstract
We report phylogenetic analyses of a multigene dataset for 24 species of the Neotropical cricetid genus Oecomys, including one new species from western Amazonia (O. hiceae) and a revalidated trans-Andean species (O. trabeatus). In addition, we analyze sequence data from four species that have not previously been included in any molecular analysis (O. flavicans, O. phaeotis, O. speciosus, and O. trinitatis sensu stricto) and from historical specimens of O. concolor (a species represented in previous analyses by sequences of problematic homology). Our results provide strong support for a monophyletic Rutilus Group (including O. hiceae, O. rutilus, O. trabeatus), a Bicolor Group (O. bicolor, O. cleberi, O. nanus, O. jamari, O. phaeotis), and a Mamorae Group (O. franciscorum, O. mamorae). We tentatively recognize two other clades that are less strongly supported by our analytic results but that seem to merit heuristic recognition: a Concolor Group (O. concolor, O. speciosus) and a Trinitatis Group (O. catherinae, O. flavicans, O. matogrossensis, O. rex, O. trinitatis). Future taxonomic progress will require sequence data from additional genes, revisionary studies of still problematic species (e.g., O. bicolor, O. trinitatis), and fresh collections from hitherto poorly surveyed regions.
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Full frame distilled prediction
Teacher imitationNot 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.
Codex and Gemma teacher scores by category
| Category | Codex | Gemma |
|---|---|---|
| Metaresearch | 0.000 | 0.000 |
| Meta-epidemiology (narrow) | 0.000 | 0.000 |
| Meta-epidemiology (broad) | 0.000 | 0.000 |
| Bibliometrics | 0.000 | 0.000 |
| Science and technology studies | 0.000 | 0.001 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.000 |
| Research integrity | 0.000 | 0.000 |
| Insufficient payload (model declined to judge) | 0.000 | 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 it