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In the Iberian Peninsula, repeated and transient post-glacial contacts among hare species have left extensive mitochondrial DNA traces, but the genomic correlates and underlying biogeographic scenarios are still incompletely understood. Here, we study genome admixture in the broom hare, Lepus castroviejoi, endemic to the Cantabrian region, using its non-Iberian sister species, L. corsicanus, for contrast. Coalescent analyses of 10 genomes estimate that these species remained isolated since their divergence around 50,000 years ago, consistent with their current allopatry. Further analyses with 25 additional genomes indicate that small fractions of the L. castroviejoi genome originate from L. granatensis, L. timidus, and L. europaeus (0.72%, 0.08%, and 0.04%, respectively). Introgression dating based on tract lengths suggests L. granatensis was already admixed with L. timidus when it hybridized with L. castroviejoi, which could explain granatensis-timidus ancestry tract junctions detected in L. castroviejoi. Genomic segments with such junctions contain genes enriched for cell signaling and olfactory receptor activity, suggesting functional drivers facilitating genetic exchange. This research demonstrates that genomic ancestry inferences can reveal complex multiway admixture histories, which can be used to illuminate complex past biogeographic events.<\/jats:p>","DOI":"10.1093\/evolut\/qpaf082","type":"journal-article","created":{"date-parts":[[2025,5,4]],"date-time":"2025-05-04T05:36:33Z","timestamp":1746336993000},"page":"1469-1479","source":"Crossref","is-referenced-by-count":2,"title":["Multiple genomic ancestries in the broom hare mark the complex biogeographic history of hares in the Iberian Peninsula"],"prefix":"10.1093","volume":"79","author":[{"given":"Jo\u00e3o","family":"Souto","sequence":"first","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"Universidade do Porto Departamento de Biologia, Faculdade de Ci\u00eancias, , Porto ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Jo\u00e3o P","family":"Marques","sequence":"additional","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Liliana","family":"Farelo","sequence":"additional","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Jos\u00e9","family":"Costa","sequence":"additional","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"Universidade do Porto Departamento de Biologia, Faculdade de Ci\u00eancias, , Porto ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Jo\u00e3o","family":"Queir\u00f3s","sequence":"additional","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"Universidade do Porto Departamento de Biologia, Faculdade de Ci\u00eancias, , Porto ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Christian","family":"Pietri","sequence":"additional","affiliation":[{"name":"F\u00e9d\u00e9ration R\u00e9gionale des Chasseurs de Corse , Bastia ,","place":["France"]}]},{"given":"Fernando","family":"Ballesteros","sequence":"additional","affiliation":[{"name":"Fundaci\u00f3n Oso Pardo , Santander ,","place":["Spain"]}]},{"given":"Paulo C","family":"Alves","sequence":"additional","affiliation":[{"name":"Universidade do Porto CIBIO, Centro de Investiga\u00e7\u00e3o em Biodiversidade e Recursos Gen\u00e9ticos, InBIO Laborat\u00f3rio Associado, , Vair\u00e3o ,","place":["Portugal"]},{"name":"Universidade do Porto Departamento de Biologia, Faculdade de Ci\u00eancias, , Porto ,","place":["Portugal"]},{"name":"CIBIO BIOPOLIS Program in Genomics, Biodiversity and Land Planning, , Vair\u00e3o ,","place":["Portugal"]}]},{"given":"Pierre","family":"Boursot","sequence":"additional","affiliation":[{"name":"CNRS Institut des Sciences de l\u2019\u00c9volution Montpellier (ISEM), Universit\u00e9 de Montpellier, , Montpellier 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