Striking pseudogenization in avian phylogenetics: Numts are large and common in falcons

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dc.citation.volume115
dc.contributor.authorNacer, Deborah F. [UNIFESP]
dc.contributor.authordo Amaral, Fabio Raposo [UNIFESP]
dc.coverageSan Diego
dc.date.accessioned2020-08-04T13:40:10Z
dc.date.available2020-08-04T13:40:10Z
dc.date.issued2017
dc.description.abstractNuclear copies of mitochondrial genes (numts) are a well-known feature of eukaryotic genomes and a concern in systematics, as they can mislead phylogenetic inferences when inadvertently used. Studies on avian numts initially based on the chicken genome suggest that numts may be uncommon and relatively short among birds. Here we ask how common numts are in falcons, based on recently sequenced genomes of the Saker falcon (Falco cherrug) and Peregrine falcon (F. peregrinus). We identified numts by BLASTN searches and then extracted CYTB, ND2 and COI sequences from them, which were then used for phylogeny inference along with several sequences from other species in Falconiformes. Our results indicate that avian numts may be much more frequent and longer than previously thought. Phylogenetic inferences revealed multiple independent nuclear insertions throughout the history of the Falconiformes, including cases of sequences available in public databases and wrongly identified as authentic mtDNA. New sequencing technologies and ongoing efforts for whole genome sequencing will provide exciting opportunities for avian numt research in the near future. (C) 2017 Elsevier Inc. All rights reserved.en
dc.description.affiliationUniv Fed Sao Paulo, Dept Ecol & Biol Evolut, Rua Prof Artur Riedel 275, BR-09972270 Diadema, SP, Brazil
dc.description.affiliationUnifespUniv Fed Sao Paulo, Dept Ecol & Biol Evolut, Rua Prof Artur Riedel 275, BR-09972270 Diadema, SP, Brazil
dc.description.sourceWeb of Science
dc.description.sponsorshipFAPESP
dc.description.sponsorshipBiota Program
dc.description.sponsorshipNSF/Biota FAPESP/NASA Dimensions of Biodiversity Grant
dc.description.sponsorshipCNPq/MCT
dc.description.sponsorshipCAPES
dc.description.sponsorshipIDBIOTA/FAPESP: 2011/50143-7
dc.description.sponsorshipIDBIOTA/FAPESP: 2011/23155-4
dc.description.sponsorshipIDBIOTA/FAPESP: 2013/50297-0
dc.description.sponsorshipIDDOB/NSF: 1343578
dc.format.extent1-6
dc.identifierhttp://dx.doi.org/10.1016/j.ympev.2017.07.002
dc.identifier.citationMolecular Phylogenetics And Evolution. San Diego, v. 115, p. 1-6, 2017.
dc.identifier.doi10.1016/j.ympev.2017.07.002
dc.identifier.issn1055-7903
dc.identifier.urihttps://repositorio.unifesp.br/handle/11600/57339
dc.identifier.wosWOS:000409156200001
dc.language.isoeng
dc.publisherAcademic Press Inc Elsevier Science
dc.relation.ispartofMolecular Phylogenetics And Evolution
dc.rightsinfo:eu-repo/semantics/restrictedAccess
dc.subjectPseudogenesen
dc.subjectSynologyen
dc.subjectAvesen
dc.subjectFalconidaeen
dc.subjectFalco cherrugen
dc.subjectFalco peregrinusen
dc.titleStriking pseudogenization in avian phylogenetics: Numts are large and common in falconsen
dc.typeinfo:eu-repo/semantics/article
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