Data from: At the passing gate: past introgression in the process of species formation between Amazilia violiceps and A. viridifrons hummingbirds along the Mexican Transition Zone
| Main Authors: | Rodríguez-Gómez, Flor, Ornelas, Juan Francisco |
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| Format: | info dataset Journal |
| Terbitan: |
, 2016
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| Subjects: | |
| Online Access: |
https://zenodo.org/record/4959011 |
Daftar Isi:
- Aim: We tested whether populations of violet-crowned and green-fronted hummingbirds, Amazilia violiceps and Amazilia viridifrons, are genetically and environmentally differentiated, and examined the role of past geological and climatic changes in driving their diversification. Location: Trans-Mexican Volcanic Belt. Methods: Mitochondrial and nuclear DNA of individuals collected throughout the species' ranges were sequenced and then analysed using maximum-likelihood and Bayesian approaches. Species tree analysis, Bayesian species delimitation, divergence time inference, historical demography, palaeodistribution modelling, and niche divergence tests were used to reconstruct the evolutionary history of the Amazilia species, and the isolation-with-migration coalescent model was assessed to determine whether genetic divergence between Amazilia species occurred in the presence of gene flow. Results: Genetic divergence between A. violiceps and A. viridifrons was shallow, with incomplete lineage sorting and introgression. Species delimitation supported three independent lineages: A. violiceps populations located north of the Trans-Mexican Volcanic Belt; a mixture of A. violiceps south of the volcanic belt and A. viridifrons populations; and A. villadai populations east of the Isthmus of Tehuantepec. Gene flow and divergence time estimates, and demographic and palaeodistribution patterns support the model of species diversification by isolation with migration and habitat shifting in response to Pleistocene climatic fluctuations. Main conclusions: The process of speciation in the Amazilia species complex may be explained by the combined effects of isolation resulting from the Trans-Mexican Volcanic Belt and the lowlands at the Isthmus of Tehuantepec and habitat shifting in response to Quaternary climatic changes.
- ND2 SequencesND2_File: Amazilia viridifrons and Amazilia violiceps nicotinamide adenine dinucleotide dehydrogenase (NADH) subunit 2 mitochondial sequences.ND2.fasND5 SequencesND5_File: Amazilia viridifrons and Amazilia violiceps nicotinamide adenine dinucleotide dehydrogenase (NADH) subunit 5 mitochondial sequences.ND5.fasARCO SequencesARCO_File: Amazilia viridifrons and Amazilia violiceps hypervariable domain I of the noncoding control region mitochondial sequences.ARCO.fasATPASE SequencesATPase_File: Amazilia viridifrons and Amazilia violiceps ATPase 6 and ATPase 8 mitochondial sequences.ATPASE.fas20454 Sequences20454_File: Amazilia viridifrons and Amazilia violiceps 20454 locus nuclear sequences.20454.fasRodríguez-Gómez&Ornelas_IMa_VIOLICvsVIRIDI_combRodríguez-Gómez&Ornelas_IMa_VIOLICvsVIRIDI_comb: VIOLIC populations from North of the TMVB versus VIRIDI populations from South of the TMVB of Amazilia violiceps and Amazilia viridifrons, combining mitochondrial and nuclear markers.Amazilia violiceps_MAXENT_FileAmazilia violiceps_MAXENT_File: coordinates longitude and latitude of Amazilia violicepsAmazilia viridifrons_MAXENT_FileAmazilia viridifrons_MAXENT_File: coordinates longitude and latitude of Amazilia viridifrons.