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Type: Journal article
Title: A universal method for the study of CR1 retroposons in nonmodel bird genomes
Author: Suh, A.
Kriegs, J.
Donnellan, S.
Brosius, J.
Schmitz, J.
Citation: Molecular Biology and Evolution, 2012; 29(10):2899-2903
Publisher: Oxford University Press (OUP)
Issue Date: 2012
ISSN: 0737-4038
Statement of
Alexander Suh, Jan Ole Kriegs, Stephen Donnellan, Jürgen Brosius, and Jürgen Schmitz
Abstract: Presence/absence patterns of retroposon insertions at orthologous genomic loci constitute straightforward markers for phylogenetic or population genetic studies. In birds, the convenient identification and utility of these markers has so far been mainly restricted to the lineages leading to model birds (i.e., chicken and zebra finch). We present an easy-to-use, rapid, and cost-effective method for the experimental isolation of chicken repeat 1 (CR1) insertions from virtually any bird genome and potentially nonavian genomes. The application of our method to the little grebe genome yielded insertions belonging to new CR1 subfamilies that are scattered all across the phylogenetic tree of avian CR1s. Furthermore, presence/absence analysis of these insertions provides the first retroposon evidence grouping flamingos + grebes as Mirandornithes and several markers for all subsequent branching events within grebes (Podicipediformes). Five markers appear to be species-specific insertions, including the hitherto first evidence in birds for biallelic CR1 insertions that could be useful in future population genetic studies.
Keywords: Birds; CR1; genomic library; retroposon extraction; inverse PCR; biallelic insertion
Rights: © The Author 2012
RMID: 0030019026
DOI: 10.1093/molbev/mss124
Appears in Collections:Ecology, Evolution and Landscape Science publications

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