Reticulate evolutionary history and extensive introgression in mosquito species revealed by phylogenetic network analysis

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dc.citation.firstpage2361en_US
dc.citation.issueNumber11en_US
dc.citation.journalTitleMolecular Ecologyen_US
dc.citation.lastpage2372en_US
dc.citation.volumeNumber25en_US
dc.contributor.authorWen, Dingqiaoen_US
dc.contributor.authorYu, Yunen_US
dc.contributor.authorHahn, Matthew W.en_US
dc.contributor.authorNakhleh, Luay K.en_US
dc.date.accessioned2017-09-19T14:07:18Zen_US
dc.date.available2017-09-19T14:07:18Zen_US
dc.date.issued2016en_US
dc.description.abstractThe role of hybridization and subsequent introgression has been demonstrated in an increasing number of species. Recently, Fontaine et al. (Science, 347, 2015, 1258524) conducted a phylogenomic analysis of six members of the Anopheles gambiae species complex. Their analysis revealed a reticulate evolutionary history and pointed to extensive introgression on all four autosomal arms. The study further highlighted the complex evolutionary signals that the co-occurrence of incomplete lineage sorting (ILS) and introgression can give rise to in phylogenomic analyses. While tree-based methodologies were used in the study, phylogenetic networks provide a more natural model to capture reticulate evolutionary histories. In this work, we reanalyse the Anopheles data using a recently devised framework that combines the multispecies coalescent with phylogenetic networks. This framework allows us to capture ILS and introgression simultaneously, and forms the basis for statistical methods for inferring reticulate evolutionary histories. The new analysis reveals a phylogenetic network with multiple hybridization events, some of which differ from those reported in the original study. To elucidate the extent and patterns of introgression across the genome, we devise a new method that quantifies the use of reticulation branches in the phylogenetic network by each genomic region. Applying the method to the mosquito data set reveals the evolutionary history of all the chromosomes. This study highlights the utility of ‘network thinking’ and the new insights it can uncover, in particular in phylogenomic analyses of large data sets with extensive gene tree incongruence.en_US
dc.identifier.citationWen, Dingqiao, Yu, Yun, Hahn, Matthew W., et al.. "Reticulate evolutionary history and extensive introgression in mosquito species revealed by phylogenetic network analysis." <i>Molecular Ecology,</i> 25, no. 11 (2016) Wiley: 2361-2372. https://doi.org/10.1111/mec.13544.en_US
dc.identifier.digitalReticulate_evolutionary_historyen_US
dc.identifier.doihttps://doi.org/10.1111/mec.13544en_US
dc.identifier.urihttps://hdl.handle.net/1911/97399en_US
dc.language.isoengen_US
dc.publisherWileyen_US
dc.rightsThis is an author's peer-reviewed final manuscript, as accepted by the publisher. The published article is copyrighted by Wiley.en_US
dc.subject.keywordAnopheles gambiaeen_US
dc.subject.keywordhybridizationen_US
dc.subject.keywordincomplete lineage sortingen_US
dc.subject.keywordintrogressionen_US
dc.subject.keywordphylogenetic networksen_US
dc.titleReticulate evolutionary history and extensive introgression in mosquito species revealed by phylogenetic network analysisen_US
dc.typeJournal articleen_US
dc.type.dcmiTexten_US
dc.type.publicationpost-printen_US
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