{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,17]],"date-time":"2026-08-17T23:47:17Z","timestamp":1787010437932,"version":"build-2736575974"},"reference-count":79,"publisher":"The Royal Society","issue":"6","license":[{"start":{"date-parts":[[2022,6,1]],"date-time":"2022-06-01T00:00:00Z","timestamp":1654041600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/royalsociety.org\/journals\/ethics-policies\/data-sharing-mining\/"}],"funder":[{"name":"Jacob Solis"},{"name":"Barcelona University"},{"name":"La Rochelle Universit\u00e9, CEBC CNRS"},{"DOI":"10.13039\/501100008530","name":"FEDER","doi-asserted-by":"crossref","id":[{"id":"10.13039\/501100008530","id-type":"DOI","asserted-by":"crossref"}]},{"name":"Gobierno de Canarias of Spain","award":["CGL2009-11278\/BOS"],"award-info":[{"award-number":["CGL2009-11278\/BOS"]}]},{"name":"Gobierno de Canarias of Spain","award":["CGL2013-42585-P"],"award-info":[{"award-number":["CGL2013-42585-P"]}]},{"name":"Gobierno de Canarias of Spain","award":["CGL2016-78530-R"],"award-info":[{"award-number":["CGL2016-78530-R"]}]},{"name":"La Rochelle Universit\u00e9 and the CEBC"},{"name":"Agence Territoriale de l'Environnement"}],"content-domain":{"domain":["royalsocietypublishing.org"],"crossmark-restriction":true},"short-container-title":["R. Soc. open sci."],"published-print":{"date-parts":[[2022,6]]},"abstract":"<jats:p>\n                    Mitochondrial DNA (mtDNA) translocated into the nuclear genome (numt), when co-analysed with genuine mtDNA, could plague phylogeographic studies. To evaluate numt-related biases in population genetics parameters in birds, which are prone to accumulating numts, we targeted the mitochondrial\n                    <jats:italic>mt-cytb<\/jats:italic>\n                    gene. We looked at 13 populations of Audubon's shearwater (\n                    <jats:italic>Puffinus lherminieri<\/jats:italic>\n                    ), including five mitochondrial lineages.\n                    <jats:italic>mt-cytb<\/jats:italic>\n                    homologue and paralogue (numt) sequences were determined by Sanger sequencing with and without prior exonuclease digestion of nuclear DNA. Numts formed monophyletic clades corresponding to three of the five mitochondrial lineages tested (the remaining two forming a paraphyletic group). Nineteen percent of numt alleles fell outside of their expected mitochondrial clade, a pattern consistent with multiple translocation events, incomplete lineage sorting (ILS), and\/or introgression. When co-analysing\n                    <jats:italic>mt-cytb<\/jats:italic>\n                    paralogues and homologues, excluding individuals with ambiguities underestimates genetic diversity (4%) and differentiation (11%) among least-sampled populations. Removing ambiguous sites drops the proportion of inter-lineage genetic variance by 63%. While co-analysing numts with mitochondrial sequences can lead to severe bias and information loss in bird phylogeographic studies, the separate analysis of genuine mitochondrial loci and their nuclear paralogues can shed light on numt molecular evolution, as well as evolutionary processes such as ILS and introgression.\n                  <\/jats:p>","DOI":"10.1098\/rsos.211888","type":"journal-article","created":{"date-parts":[[2022,6,15]],"date-time":"2022-06-15T03:06:39Z","timestamp":1655262399000},"update-policy":"https:\/\/doi.org\/10.1098\/crossmark-policy","source":"Crossref","is-referenced-by-count":19,"title":["Translocation of mitochondrial DNA into the nuclear genome blurs phylogeographic and conservation genetic studies in seabirds"],"prefix":"10.1098","volume":"9","author":[{"given":"Torres","family":"Lucas","sequence":"first","affiliation":[{"name":"Centre d'Etudes Biologiques de Chiz\u00e9, UMR 7372, CNRS - La Rochelle Universite, Villiers en Bois, France"},{"name":"Littoral, Environnement et Soci\u00e9t\u00e9s, UMR 7266 CNRS - La Rochelle Universit\u00e9, La Rochelle, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bretagnolle","family":"Vincent","sequence":"additional","affiliation":[{"name":"Centre d'Etudes Biologiques de Chiz\u00e9, UMR 7372, CNRS - La Rochelle Universite, Villiers en Bois, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7680-2112","authenticated-orcid":false,"given":"Pante","family":"Eric","sequence":"additional","affiliation":[{"name":"Littoral, Environnement et Soci\u00e9t\u00e9s, UMR 7266 CNRS - La Rochelle Universit\u00e9, La Rochelle, France"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"175","published-online":{"date-parts":[[2022,6,15]]},"reference":[{"key":"e_1_3_6_2_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.es.18.110187.002421"},{"key":"e_1_3_6_3_2","doi-asserted-by":"publisher","DOI":"10.1146\/annurev.es.18.110187.001413"},{"key":"e_1_3_6_4_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1365-294X.2008.03737.x"},{"key":"e_1_3_6_5_2","doi-asserted-by":"publisher","DOI":"10.1016\/S0379-0738(03)00128-2"},{"key":"e_1_3_6_6_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.foodchem.2007.03.045"},{"key":"e_1_3_6_7_2","volume-title":"Molecular evolutionary genetics","author":"Brown WM","year":"1985","unstructured":"Brown WM. 1985 The mitochondrial genome of animals. 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