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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

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

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Author(s):
Nacer, Deborah F. ; do Amaral, Fabio Raposo
Total Authors: 2
Document type: Journal article
Source: Molecular Phylogenetics and Evolution; v. 115, p. 1-6, OCT 2017.
Web of Science Citations: 4
Abstract

Nuclear 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. (AU)

FAPESP's process: 11/50143-7 - Comparative multilocus phylogeography of three species of Poospiza (Aves, Passeriformes): exploring the history of the montane Atlantic Forest
Grantee:Fábio Sarubbi Raposo do Amaral
Support Opportunities: BIOTA-FAPESP Program - Young Investigators Grants
FAPESP's process: 13/50297-0 - Dimensions US-BIOTA São Paulo: a multidisciplinary framework for biodiversity prediction in the Brazilian Atlantic forest hotspot
Grantee:Cristina Yumi Miyaki
Support Opportunities: BIOTA-FAPESP Program - Thematic Grants
FAPESP's process: 11/23155-4 - Comparative multilocus phylogeography of three species of Poospiza (Aves, Passeriformes): exploring the history of the montane Atlantic Forest
Grantee:Fábio Sarubbi Raposo do Amaral
Support Opportunities: Scholarships in Brazil - BIOTA - Young Researchers