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Are glacial refugia hotspots of speciation and cytonuclear discordances? Answers from the genomic phylogeography of Spanish common frogs.
Mol Ecol. 2020 03; 29(5):986-1000.ME

Abstract

Subdivided Pleistocene glacial refugia, best known as "refugia within refugia", provided opportunities for diverging populations to evolve into incipient species and/or to hybridize and merge following range shifts tracking the climatic fluctuations, potentially promoting extensive cytonuclear discordances and "ghost" mtDNA lineages. Here, we tested which of these opposing evolutionary outcomes prevails in northern Iberian areas hosting multiple historical refugia of common frogs (Rana cf. temporaria), based on a genomic phylogeography approach (mtDNA barcoding and RAD-sequencing). We found evidence for both incipient speciation events and massive cytonuclear discordances. On the one hand, populations from northwestern Spain (Galicia and Asturias, assigned to the regional endemic R. parvipalmata), are deeply-diverged at mitochondrial and nuclear genomes (~4 My of independent evolution), and barely admix with northeastern populations (assigned to R. temporaria sensu stricto) across a narrow hybrid zone (~25 km) located in the Cantabrian Mountains, suggesting that they represent distinct species. On the other hand, the most divergent mtDNA clade, widespread in Cantabria and the Basque country, shares its nuclear genome with other R. temporaria s. s. lineages. Patterns of population expansions and isolation-by-distance among these populations are consistent with past mitochondrial capture and/or drift in generating and maintaining this ghost mitochondrial lineage. This remarkable case study emphasizes the complex evolutionary history that shaped the present genetic diversity of refugial populations, and stresses the need to revisit their phylogeography by genomic approaches, in order to make informed taxonomic inferences.

Authors+Show Affiliations

LASER, College of Biology and the Environment, Nanjing Forestry University, Nanjing, China. Department of Animal and Plant Sciences, University of Sheffield, Sheffield, UK.Department of Organisms and Systems Biology, University of Oviedo, Oviedo, Spain. Research Unit of Biodiversity (UMIB, CSIC-UO-PA), Mieres, Spain.Institute of Cytology, Russian Academy of Sciences, Saint Petersburg, Russia. Dagestan State University, Makhachkala, Russia.Department of Ecology & Evolution, University of Lausanne, Lausanne, Switzerland.Department of Ecology & Evolution, University of Lausanne, Lausanne, Switzerland.Zoological Institute, Technische Universität Braunschweig, Braunschweig, Germany.Department of Ecology & Evolution, University of Lausanne, Lausanne, Switzerland.Departamento de Biodiversidad y Biología Evolutiva, Museo Nacional de Ciencias Naturales (MNCN-CSIC), Madrid, Spain.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

32012388

Citation

Dufresnes, Christophe, et al. "Are Glacial Refugia Hotspots of Speciation and Cytonuclear Discordances? Answers From the Genomic Phylogeography of Spanish Common Frogs." Molecular Ecology, vol. 29, no. 5, 2020, pp. 986-1000.
Dufresnes C, Nicieza AG, Litvinchuk SN, et al. Are glacial refugia hotspots of speciation and cytonuclear discordances? Answers from the genomic phylogeography of Spanish common frogs. Mol Ecol. 2020;29(5):986-1000.
Dufresnes, C., Nicieza, A. G., Litvinchuk, S. N., Rodrigues, N., Jeffries, D. L., Vences, M., Perrin, N., & Martínez-Solano, Í. (2020). Are glacial refugia hotspots of speciation and cytonuclear discordances? Answers from the genomic phylogeography of Spanish common frogs. Molecular Ecology, 29(5), 986-1000. https://doi.org/10.1111/mec.15368
Dufresnes C, et al. Are Glacial Refugia Hotspots of Speciation and Cytonuclear Discordances? Answers From the Genomic Phylogeography of Spanish Common Frogs. Mol Ecol. 2020;29(5):986-1000. PubMed PMID: 32012388.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Are glacial refugia hotspots of speciation and cytonuclear discordances? Answers from the genomic phylogeography of Spanish common frogs. AU - Dufresnes,Christophe, AU - Nicieza,Alfredo G, AU - Litvinchuk,Spartak N, AU - Rodrigues,Nicolas, AU - Jeffries,Daniel L, AU - Vences,Miguel, AU - Perrin,Nicolas, AU - Martínez-Solano,Íñigo, Y1 - 2020/02/18/ PY - 2019/11/02/received PY - 2020/01/23/revised PY - 2020/01/27/accepted PY - 2020/2/6/pubmed PY - 2020/2/6/medline PY - 2020/2/4/entrez KW - Rana parvipalmata KW - Rana temporaria KW - RAD-sequencing KW - ghost lineage KW - glacial refugium KW - hybrid zone SP - 986 EP - 1000 JF - Molecular ecology JO - Mol. Ecol. VL - 29 IS - 5 N2 - Subdivided Pleistocene glacial refugia, best known as "refugia within refugia", provided opportunities for diverging populations to evolve into incipient species and/or to hybridize and merge following range shifts tracking the climatic fluctuations, potentially promoting extensive cytonuclear discordances and "ghost" mtDNA lineages. Here, we tested which of these opposing evolutionary outcomes prevails in northern Iberian areas hosting multiple historical refugia of common frogs (Rana cf. temporaria), based on a genomic phylogeography approach (mtDNA barcoding and RAD-sequencing). We found evidence for both incipient speciation events and massive cytonuclear discordances. On the one hand, populations from northwestern Spain (Galicia and Asturias, assigned to the regional endemic R. parvipalmata), are deeply-diverged at mitochondrial and nuclear genomes (~4 My of independent evolution), and barely admix with northeastern populations (assigned to R. temporaria sensu stricto) across a narrow hybrid zone (~25 km) located in the Cantabrian Mountains, suggesting that they represent distinct species. On the other hand, the most divergent mtDNA clade, widespread in Cantabria and the Basque country, shares its nuclear genome with other R. temporaria s. s. lineages. Patterns of population expansions and isolation-by-distance among these populations are consistent with past mitochondrial capture and/or drift in generating and maintaining this ghost mitochondrial lineage. This remarkable case study emphasizes the complex evolutionary history that shaped the present genetic diversity of refugial populations, and stresses the need to revisit their phylogeography by genomic approaches, in order to make informed taxonomic inferences. SN - 1365-294X UR - https://www.unboundmedicine.com/medline/citation/32012388/Are_glacial_refugia_hotspots_of_speciation_and_cytonuclear_discordances_Answers_from_the_genomic_phylogeography_of_Spanish_common_frogs_ L2 - https://doi.org/10.1111/mec.15368 DB - PRIME DP - Unbound Medicine ER -
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