{"id":{"repo_id":"sevilla","oai_identifier":"oai:idus.us.es:11441/187981"},"canonical_url":"https://search.dev.ndltd.org/etd/sevilla/oai:idus.us.es:11441/187981","repository":{"repo_id":"sevilla","name":"Universidad de Sevilla","base_url":"https://idus.us.es/server/oai/request"},"display":{"title":"Chromosomal inversions as a mechanism for sympatric differentiation in common quails","abstract":"Chromosomal inversions are key drivers of phenotypic divergence, local adaptation and early reproductive isolation, but their effects in highly mobile species remain poorly understood. In the common quail Coturnix coturnix, a large inversion on chromosome 1 spans about 12% of the genome and defines three karyotypes (AA, AB, BB) that differ in morphology and migratory behaviour while still coexisting and interbreeding in parts of the western Palearctic. This thesis assess how this rearrangement shapes population processes and contributes to divergence in sympatry. In Chapter 1, quails wintering in southern Iberia are analysed to determine the genetic composition of the wintering population and to test whether the presence of overwintering individuals reflects potential spatial segregation linked to the chromosome 1 inversion, these analyses reveal that all three karyotypes overwinter there and differ in winter diet. Chapter 2 compares the breeding phenology of the three karyotypes, showing overlapping presence and reproductive timing and that heterokaryotypes may experience delayed sexual maturation. Chapter 3 uses a range-wide set of samples across the Mediterranean Sea, Macaronesia and West Africa to show negligible genome-wide structure, with no association with geography or migratory routes but a sharp geographic restriction of the chromosome 1 inversion to southern Iberia, Morocco and the Macaronesian and Balearic Islands. Finally, Chapter 4 test whether the chromosomal inversion have downstream effects on gut microbiomes; diet (protein level) and season emerge as the main drivers, while karyotype exerts a weaker, age-dependent influence and shapes only a small subset of host-selected bacterial taxa. Altogether, this PhD thesis shows that a large chromosomal inversion can sustain alternative life-history strategies within an otherwise highly connected migratory bird by generating localised genomic structure and partial postzygotic isolation, while the rest of the genome remains panmictic.","abstract_html":"Chromosomal inversions are key drivers of phenotypic divergence, local adaptation and early reproductive isolation, but their effects in highly mobile species remain poorly understood. In the common quail Coturnix coturnix, a large inversion on chromosome 1 spans about 12% of the genome and defines three karyotypes (AA, AB, BB) that differ in morphology and migratory behaviour while still coexisting and interbreeding in parts of the western Palearctic. This thesis assess how this rearrangement shapes population processes and contributes to divergence in sympatry. In Chapter 1, quails wintering in southern Iberia are analysed to determine the genetic composition of the wintering population and to test whether the presence of overwintering individuals reflects potential spatial segregation linked to the chromosome 1 inversion, these analyses reveal that all three karyotypes overwinter there and differ in winter diet. Chapter 2 compares the breeding phenology of the three karyotypes, showing overlapping presence and reproductive timing and that heterokaryotypes may experience delayed sexual maturation. Chapter 3 uses a range-wide set of samples across the Mediterranean Sea, Macaronesia and West Africa to show negligible genome-wide structure, with no association with geography or migratory routes but a sharp geographic restriction of the chromosome 1 inversion to southern Iberia, Morocco and the Macaronesian and Balearic Islands. Finally, Chapter 4 test whether the chromosomal inversion have downstream effects on gut microbiomes; diet (protein level) and season emerge as the main drivers, while karyotype exerts a weaker, age-dependent influence and shapes only a small subset of host-selected bacterial taxa. Altogether, this PhD thesis shows that a large chromosomal inversion can sustain alternative life-history strategies within an otherwise highly connected migratory bird by generating localised genomic structure and partial postzygotic isolation, while the rest of the genome remains panmictic.","abstract_has_math":false,"creators":["Vinagre Izquierdo, Celia"],"institution":null,"degree_name":null,"degree_level":null,"degree_discipline":null,"degree_department":null,"school":null,"contributors":[],"advisors":["Sánchez-Donoso, Inés","Vilà Arbonés, Carlos"],"committee_chairs":[],"committee_members":[],"year":2026,"date_issued":"2026-05-08","date_published":"2026-05-08","updated_at":"2026-07-24T04:29:51Z","subjects":[],"languages":["eng"],"rights":["Attribution-NonCommercial-NoDerivatives 4.0 International"],"rights_urls":["http://creativecommons.org/licenses/by-nc-nd/4.0/"],"identifier_entries":[]},"links":{"outbound_url":"https://hdl.handle.net/11441/187981","outbound_label":"Handle","outbound_source":"dc:identifier.uri"},"metadata_groups":[{"id":"people","label":"People","entries":[{"key":"dc:contributor.advisor","label":"Advisor","values":["Sánchez-Donoso, Inés","Vilà Arbonés, Carlos"]},{"key":"dc:creator","label":"Author","values":["Vinagre Izquierdo, Celia"]}]},{"id":"academic_context","label":"Academic Context","entries":[{"key":"dc:date.accessioned","label":"Dc Date Accessioned","values":["2026-07-10T10:35:36Z"]},{"key":"dc:date.available","label":"Dc Date Available","values":["2026-07-10T10:35:36Z"]},{"key":"dc:date.issued","label":"Date","values":["2026-05-08"]},{"key":"dc:type","label":"Dc Type","values":["doctoral thesis"]}]},{"id":"language_rights","label":"Language and Rights","entries":[{"key":"dc:language.iso","label":"Language (ISO)","values":["eng"]},{"key":"dc:rights","label":"Dc Rights","values":["Attribution-NonCommercial-NoDerivatives 4.0 International"]},{"key":"dc:rights.uri","label":"Rights URI","values":["http://creativecommons.org/licenses/by-nc-nd/4.0/"]}]},{"id":"identifiers","label":"Identifiers","entries":[{"key":"dc:identifier.uri","label":"Identifier URI","values":["https://hdl.handle.net/11441/187981"]}]},{"id":"additional","label":"Additional Metadata","entries":[{"key":"dc:description.abstract","label":"Abstract","values":["Chromosomal inversions are key drivers of phenotypic divergence, local adaptation and early reproductive isolation, but their effects in highly mobile species remain poorly understood. In the common quail Coturnix coturnix, a large inversion on chromosome 1 spans about 12% of the genome and defines three karyotypes (AA, AB, BB) that differ in morphology and migratory behaviour while still coexisting and interbreeding in parts of the western Palearctic. This thesis assess how this rearrangement shapes population processes and contributes to divergence in sympatry. In Chapter 1, quails wintering in southern Iberia are analysed to determine the genetic composition of the wintering population and to test whether the presence of overwintering individuals reflects potential spatial segregation linked to the chromosome 1 inversion, these analyses reveal that all three karyotypes overwinter there and differ in winter diet. Chapter 2 compares the breeding phenology of the three karyotypes, showing overlapping presence and reproductive timing and that heterokaryotypes may experience delayed sexual maturation. Chapter 3 uses a range-wide set of samples across the Mediterranean Sea, Macaronesia and West Africa to show negligible genome-wide structure, with no association with geography or migratory routes but a sharp geographic restriction of the chromosome 1 inversion to southern Iberia, Morocco and the Macaronesian and Balearic Islands. Finally, Chapter 4 test whether the chromosomal inversion have downstream effects on gut microbiomes; diet (protein level) and season emerge as the main drivers, while karyotype exerts a weaker, age-dependent influence and shapes only a small subset of host-selected bacterial taxa. Altogether, this PhD thesis shows that a large chromosomal inversion can sustain alternative life-history strategies within an otherwise highly connected migratory bird by generating localised genomic structure and partial postzygotic isolation, while the rest of the genome remains panmictic.","Esta tesis doctoral investiga el papel de una gran inversión cromosómica en el cromosoma 1 de la codorniz común Coturnix coturnix como motor de divergencia fenotípica, estructuración genómica localizada y aislamiento reproductivo parcial en una especie migradora y panmíctica. La inversión abarca alrededor del 12% del genoma y define tres cariotipos AA, AB y BB que difieren en morfología, comportamiento migratorio y uso de recursos, aunque coexisten e hibridan en simpatría en el suroeste de la Península Ibérica, Marruecos y varios archipiélagos de Macaronesia y Baleares.? Mediante la combinación de genotipado por secuenciación (GBS), análisis de isótopos estables, seguimiento de campo a largo plazo y metabarcoding del microbioma intestinal, la tesis evalúa cómo esta reorganización cromosómica modula procesos poblacionales y estrategias de ciclo vital. En el Capítulo 1 se analiza la población invernante del sur de la Península Ibérica, mostrando que los tres cariotipos coexisten durante el invierno y que difieren en su dieta inferida a partir de isótopos, lo que indica que la inversión se asocia a estrategias alternativas de migración (AA más migradores, BB más residentes) y partición del uso de recursos dentro de las mismas áreas de invernada. El Capítulo 2 examina la fenología reproductora anual y encuentra solapamiento en presencia y periodo reproductor entre cariotipos, ausencia de un aislamiento precigótico marcado por tiempo de reproducción y una maduración sexual más lenta en heterocigotipos AB, consistente con un aislamiento poscigótico parcial.?En el Capítulo 3 se utilizan muestras de todo el rango occidental (Europa, norte de África, Macaronesia y áreas de invernada sahelianas) para evaluar la estructura genética asociada a rutas migratorias y reordenamientos cromosómicos. Los análisis de SNPs muestran una estructura poblacional prácticamente inexistente en la mayor parte del genoma, pero una fuerte diferenciación restringida a la región de la inversión del cromosoma 1, limitada geográficamente al suroeste ibérico, Marruecos y los archipiélagos de Macaronesia y Baleares, mientras que las inversiones ligadas del cromosoma 2 están ampliamente distribuidas y no generan estructura detectable. Estos resultados ilustran una fragmentación del genoma, donde una única inversión grande sostiene linajes cromosómicos divergentes con historias evolutivas parcialmente independientes sobre un genoma panmíctico.? El Capítulo 4 evalúa si la inversión tiene consecuencias sobre la microbiota intestinal. Los análisis indican que dieta (?¹?N como proxy del nivel trófico), hábitat y estación son los principales factores que estructuran la diversidad y composición de los microbiomas, mientras que el cariotipo ejerce un efecto más débil, dependiente de la edad y limitado a un pequeño subconjunto de taxones bacterianos seleccionados por el hospedador. En conjunto, la tesis demuestra que una sola inversión cromosómica de gran tamaño puede sostener estrategias vitales alternativas, generar estructura genómica localizada y contribuir a un aislamiento reproductivo parcial en una especie migratoria de alta movilidad, al tiempo que el resto del genoma se mantiene ampliamente homogéneo por flujo génico."]},{"key":"dc:format","label":"Dc Format","values":["application/pdf"]},{"key":"dc:title","label":"Title","values":["Chromosomal inversions as a mechanism for sympatric differentiation in common quails"]}]}],"canonical_facts":{"dc:contributor.advisor":["Sánchez-Donoso, Inés","Vilà Arbonés, Carlos"],"dc:creator":["Vinagre Izquierdo, Celia"],"dc:date.accessioned":["2026-07-10T10:35:36Z"],"dc:date.available":["2026-07-10T10:35:36Z"],"dc:date.issued":["2026-05-08"],"dc:description.abstract":["Chromosomal inversions are key drivers of phenotypic divergence, local adaptation and early reproductive isolation, but their effects in highly mobile species remain poorly understood. In the common quail Coturnix coturnix, a large inversion on chromosome 1 spans about 12% of the genome and defines three karyotypes (AA, AB, BB) that differ in morphology and migratory behaviour while still coexisting and interbreeding in parts of the western Palearctic. This thesis assess how this rearrangement shapes population processes and contributes to divergence in sympatry. In Chapter 1, quails wintering in southern Iberia are analysed to determine the genetic composition of the wintering population and to test whether the presence of overwintering individuals reflects potential spatial segregation linked to the chromosome 1 inversion, these analyses reveal that all three karyotypes overwinter there and differ in winter diet. Chapter 2 compares the breeding phenology of the three karyotypes, showing overlapping presence and reproductive timing and that heterokaryotypes may experience delayed sexual maturation. Chapter 3 uses a range-wide set of samples across the Mediterranean Sea, Macaronesia and West Africa to show negligible genome-wide structure, with no association with geography or migratory routes but a sharp geographic restriction of the chromosome 1 inversion to southern Iberia, Morocco and the Macaronesian and Balearic Islands. Finally, Chapter 4 test whether the chromosomal inversion have downstream effects on gut microbiomes; diet (protein level) and season emerge as the main drivers, while karyotype exerts a weaker, age-dependent influence and shapes only a small subset of host-selected bacterial taxa. Altogether, this PhD thesis shows that a large chromosomal inversion can sustain alternative life-history strategies within an otherwise highly connected migratory bird by generating localised genomic structure and partial postzygotic isolation, while the rest of the genome remains panmictic.","Esta tesis doctoral investiga el papel de una gran inversión cromosómica en el cromosoma 1 de la codorniz común Coturnix coturnix como motor de divergencia fenotípica, estructuración genómica localizada y aislamiento reproductivo parcial en una especie migradora y panmíctica. La inversión abarca alrededor del 12% del genoma y define tres cariotipos AA, AB y BB que difieren en morfología, comportamiento migratorio y uso de recursos, aunque coexisten e hibridan en simpatría en el suroeste de la Península Ibérica, Marruecos y varios archipiélagos de Macaronesia y Baleares.? Mediante la combinación de genotipado por secuenciación (GBS), análisis de isótopos estables, seguimiento de campo a largo plazo y metabarcoding del microbioma intestinal, la tesis evalúa cómo esta reorganización cromosómica modula procesos poblacionales y estrategias de ciclo vital. En el Capítulo 1 se analiza la población invernante del sur de la Península Ibérica, mostrando que los tres cariotipos coexisten durante el invierno y que difieren en su dieta inferida a partir de isótopos, lo que indica que la inversión se asocia a estrategias alternativas de migración (AA más migradores, BB más residentes) y partición del uso de recursos dentro de las mismas áreas de invernada. El Capítulo 2 examina la fenología reproductora anual y encuentra solapamiento en presencia y periodo reproductor entre cariotipos, ausencia de un aislamiento precigótico marcado por tiempo de reproducción y una maduración sexual más lenta en heterocigotipos AB, consistente con un aislamiento poscigótico parcial.?En el Capítulo 3 se utilizan muestras de todo el rango occidental (Europa, norte de África, Macaronesia y áreas de invernada sahelianas) para evaluar la estructura genética asociada a rutas migratorias y reordenamientos cromosómicos. Los análisis de SNPs muestran una estructura poblacional prácticamente inexistente en la mayor parte del genoma, pero una fuerte diferenciación restringida a la región de la inversión del cromosoma 1, limitada geográficamente al suroeste ibérico, Marruecos y los archipiélagos de Macaronesia y Baleares, mientras que las inversiones ligadas del cromosoma 2 están ampliamente distribuidas y no generan estructura detectable. Estos resultados ilustran una fragmentación del genoma, donde una única inversión grande sostiene linajes cromosómicos divergentes con historias evolutivas parcialmente independientes sobre un genoma panmíctico.? El Capítulo 4 evalúa si la inversión tiene consecuencias sobre la microbiota intestinal. Los análisis indican que dieta (?¹?N como proxy del nivel trófico), hábitat y estación son los principales factores que estructuran la diversidad y composición de los microbiomas, mientras que el cariotipo ejerce un efecto más débil, dependiente de la edad y limitado a un pequeño subconjunto de taxones bacterianos seleccionados por el hospedador. En conjunto, la tesis demuestra que una sola inversión cromosómica de gran tamaño puede sostener estrategias vitales alternativas, generar estructura genómica localizada y contribuir a un aislamiento reproductivo parcial en una especie migratoria de alta movilidad, al tiempo que el resto del genoma se mantiene ampliamente homogéneo por flujo génico."],"dc:format":["application/pdf"],"dc:identifier.uri":["https://hdl.handle.net/11441/187981"],"dc:language.iso":["eng"],"dc:rights":["Attribution-NonCommercial-NoDerivatives 4.0 International"],"dc:rights.uri":["http://creativecommons.org/licenses/by-nc-nd/4.0/"],"dc:title":["Chromosomal inversions as a mechanism for sympatric differentiation in common quails"],"dc:type":["doctoral thesis"]},"updated_at":"2026-07-24T04:29:51Z"}