Suh, Alexander ORCID: https://orcid.org/0000-0002-8979-9992, Bachg, Sandra, Donnellan, Stephen, Joseph, Leo, Brosius, Jürgen, Kriegs, Jan Ole and Schmitz, Jürgen
(2017)
De-novo emergence of SINE retroposons during the early evolution of passerine birds.
Mobile DNA, 8 (1).
ISSN 1759-8753
Abstract
Background: Passeriformes ("perching birds" or passerines) make up more than half of all extant bird species. The genome of the zebra finch, a passerine model organism for vocal learning, was noted previously to contain thousands of short interspersed elements (SINEs), a group of retroposons that is abundant in mammalian genomes but considered largely inactive in avian genomes. Results: Here we resolve the deep phylogenetic relationships of passerines using presence/absence patterns of SINEs. The resultant retroposon-based phylogeny provides a powerful and independent corroboration of previous sequence-based analyses. Notably, SINE activity began in the common ancestor of Eupasseres (passerines excluding the New Zealand wrens Acanthisittidae) and ceased before the rapid diversification of oscine passerines (suborder Passeri - songbirds). Furthermore, we find evidence for very recent SINE activity within suboscine passerines (suborder Tyranni), following the emergence of a SINE via acquisition of a different tRNA head as we suggest through template switching. Conclusions: We propose that the early evolution of passerines was unusual among birds in that it was accompanied by de-novo emergence and activity of SINEs. Their genomic and transcriptomic impact warrants further study in the light of the massive diversification of passerines.
Item Type: | Article |
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Additional Information: | Funding Information: This research was funded by the Deutsche Forschungsgemeinschaft (KR3639 to J.O.K. and J.S.). Publisher Copyright: © 2017 The Author(s). |
Uncontrolled Keywords: | birds,passeriformes,phylogenomics,retroposon,sine,transposon,molecular biology ,/dk/atira/pure/subjectarea/asjc/1300/1312 |
Faculty \ School: | Faculty of Science > School of Biological Sciences |
Related URLs: | |
Depositing User: | LivePure Connector |
Date Deposited: | 16 Sep 2022 15:35 |
Last Modified: | 07 Apr 2024 00:51 |
URI: | https://ueaeprints.uea.ac.uk/id/eprint/88407 |
DOI: | 10.1186/s13100-017-0104-1 |
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