Using supernetworks to distinguish hybridization from lineage-sorting

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dc.contributor.authorHolland BR
dc.contributor.authorBenthin S
dc.contributor.authorLockhart PJ
dc.contributor.authorMoulton V
dc.contributor.authorHuber KT
dc.date.accessioned2010-10-07T04:46:28Z
dc.date.accessioned2016-03-06T22:26:00Z
dc.date.availableNO_RESTRICTION
dc.date.available2010-10-07T04:46:28Z
dc.date.available2016-03-06T22:26:00Z
dc.date.issued2008
dc.description.abstractBackgroundA simple and widely used approach for detecting hybridization in phylogenies is to reconstruct gene trees from independent gene loci, and to look for gene tree incongruence. However, this approach may be confounded by factors such as poor taxon-sampling and/or incomplete lineage-sorting.ResultsUsing coalescent simulations, we investigated the potential of supernetwork methods to differentiate between gene tree incongruence arising from taxon sampling and incomplete lineage-sorting as opposed to hybridization. For few hybridization events, a large number of independent loci, and well-sampled taxa across these loci, we found that it was possible to distinguish incomplete lineage-sorting from hybridization using the filtered Z-closure and Q-imputation supernetwork methods. Moreover, we found that the choice of supernetwork method was less important than the choice of filtering, and that count-based filtering was the most effective filtering technique.ConclusionFiltered supernetworks provide a tool for detecting and identifying hybridization events in phylogenies, a tool that should become increasingly useful in light of current genome sequencing initiatives and the ease with which large numbers of independent gene loci can be determined using new generation sequencing technologies.
dc.identifier.citationHolland, B. R., Benthin, S., Lockhart, P. J., Moulton, V., & Huber, K. T. (2008). Using supernetworks to distinguish hybridization from lineage-sorting. Bmc Evolutionary Biology, 8(202). doi: 10.1186/1471-2148-8-202
dc.identifier.harvestedMassey_Dark
dc.identifier.harvestedMassey_Dark
dc.language.isoen
dc.publisherBioMed Central
dc.relation.isbasedonBiomed Central
dc.relation.isformatofhttp://www.biomedcentral.com/1471-2148/8/202
dc.rights2008 Holland et al; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
dc.subjectSimulation
dc.subjectHybridisation
dc.subjectGenes
dc.subjectSequencing
dc.subject.otherFields of Research::230000 Mathematical Sciences::239900 Other Mathematical Sciences::239901 Biological Mathematics
dc.titleUsing supernetworks to distinguish hybridization from lineage-sorting
dc.typeJournal article
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