Show simple item record

dc.contributor.authorBraun, Edward L
dc.contributor.authorKimball, Rebecca T
dc.contributor.authorHan, Kin-Lan
dc.contributor.authorIuhasz-Velez, Naomi R
dc.contributor.authorBonilla, Amber J
dc.contributor.authorChojnowski, Jena L
dc.contributor.authorSmith, Jordan V
dc.contributor.authorBowie, Rauri CK
dc.contributor.authorBraun, Michael J
dc.contributor.authorHackett, Shannon J
dc.contributor.authorHarshman, John
dc.contributor.authorHuddleston, Christopher J
dc.contributor.authorMarks, Ben D
dc.contributor.authorMiglia, Kathleen J
dc.contributor.authorMoore, William S
dc.contributor.authorReddy, Sushma
dc.contributor.authorSheldon, Frederick H
dc.contributor.authorWitt, Christopher C
dc.contributor.authorYuri, Tamaki
dc.date.accessioned2013-06-12T14:59:27Z
dc.date.available2013-06-12T14:59:27Z
dc.date.issued2011-05-25
dc.identifier.citationBMC Evolutionary Biology. 2011 May 25;11(1):141
dc.identifier.urihttp://dx.doi.org/10.1186/1471-2148-11-141
dc.identifier.urihttp://hdl.handle.net/10724/19639
dc.description.abstractAbstract Background Microinversions are cytologically undetectable inversions of DNA sequences that accumulate slowly in genomes. Like many other rare genomic changes (RGCs), microinversions are thought to be virtually homoplasy-free evolutionary characters, suggesting that they may be very useful for difficult phylogenetic problems such as the avian tree of life. However, few detailed surveys of these genomic rearrangements have been conducted, making it difficult to assess this hypothesis or understand the impact of microinversions upon genome evolution. Results We surveyed non-coding sequence data from a recent avian phylogenetic study and found substantially more microinversions than expected based upon prior information about vertebrate inversion rates, although this is likely due to underestimation of these rates in previous studies. Most microinversions were lineage-specific or united well-accepted groups. However, some homoplastic microinversions were evident among the informative characters. Hemiplasy, which reflects differences between gene trees and the species tree, did not explain the observed homoplasy. Two specific loci were microinversion hotspots, with high numbers of inversions that included both the homoplastic as well as some overlapping microinversions. Neither stem-loop structures nor detectable sequence motifs were associated with microinversions in the hotspots. Conclusions Microinversions can provide valuable phylogenetic information, although power analysis indicates that large amounts of sequence data will be necessary to identify enough inversions (and similar RGCs) to resolve short branches in the tree of life. Moreover, microinversions are not perfect characters and should be interpreted with caution, just as with any other character type. Independent of their use for phylogenetic analyses, microinversions are important because they have the potential to complicate alignment of non-coding sequences. Despite their low rate of accumulation, they have clearly contributed to genome evolution, suggesting that active identification of microinversions will prove useful in future phylogenomic studies.
dc.titleHomoplastic Microinversions and the Avian Tree of Life
dc.typeJournal Article
dc.date.updated2013-06-07T15:19:21Z
dc.description.versionPeer Reviewed
dc.language.rfc3066en
dc.rights.holderEdward L Braun et al.; licensee BioMed Central Ltd.


Files in this item

Thumbnail
Thumbnail
Thumbnail
Thumbnail
Thumbnail

This item appears in the following Collection(s)

Show simple item record