De-novo emergence of SINE retroposons during the early evolution of passerine birds

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

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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
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
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Depositing User: LivePure Connector
Date Deposited: 16 Sep 2022 15:35
Last Modified: 24 Sep 2022 07:15
URI: https://ueaeprints.uea.ac.uk/id/eprint/88407
DOI: 10.1186/s13100-017-0104-1

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