A cryptic contact zone between divergent mitochondrial DNA lineages in southwestern North America supports past introgressive hybridization in the yellow-rumped warbler complex (Aves: Dendroica coronata)
Bibliographic record
Abstract
Using genetic data to study the process of population divergence is central to understanding speciation, yet distinguishing between recent divergence and introgressive hybridization is challenging. In a previous study on the phylogeography of the yellow-rumped warbler complex using mitochondrial (mt)DNA data, we reported limited sequence divergence and a lack of reciprocal monophyly between myrtle and Audubon's warblers (Dendroica coronata and Dendroica auduboni, respectively), suggesting very recent isolation. In the present study, we report the results obtained from a subsequent sampling of Audubon's warbler in Arizona and Utah (‘memorabilis’ race), which shows that, although this taxon is similar to auduboni in plumage colour, most memorabilis individuals sampled (93%) carry haplotypes that belong to the divergent black-fronted warbler lineage (Dendroica nigrifrons) of Mexico. Furthermore, the auduboni and nigrifrons lineages mix in southern Utah at a narrow, yet apparently ‘cryptic’ contact zone. Newly-available evidence from nuclear markers indicating marked differentiation between auduboni and coronata has focused attention on the possibility of mtDNA introgression in the absence of nuclear gene flow, and the results of the present study are consistent with the hypothesis that the mtDNA of auduboni was indeed historically introgressed from the coronata lineage. Analysis of morphological traits shows that memorabilis is significantly differentiated from auduboni and nigrifrons in some traits, yet is overall intermediate between the two, which is consistent with a shared common ancestor for the auduboni/memorabilis/nigrifrons group. The striking, unexpected mtDNA pattern reported in the present study reveals a complex evolutionary history of the yellow-rumped warbler complex, and cautions against the exclusive use of mtDNA to infer evolutionary relationships.
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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 | 0.000 |
| Science and technology studies | 0.001 | 0.001 |
| Scholarly communication | 0.000 | 0.000 |
| Open science | 0.000 | 0.001 |
| 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".