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dc.contributor.author Caravas, Jason
dc.contributor.author Friedrich, Markus
dc.date.accessioned 2012-12-10T17:45:59Z
dc.date.available 2012-12-10T17:45:59Z
dc.date.issued 2012-10-22
dc.identifier doi:10.5061/dryad.f7m5t
dc.identifier.citation Caravas J, Friedrich M (2012) Shaking the Diptera tree of life: performance analysis of nuclear and mitochondrial sequence data partitions. Systematic Entomology 38(1): 93–103.
dc.identifier.uri http://hdl.handle.net/10255/dryad.44885
dc.description The value of mitochondrial versus nuclear gene sequence data in phylogenetic analysis has received much attention without yielding definitive conclusions. Theoretical arguments and empirical data suggest a lower phylogenetic utility than equivalent nuclear gene sequences, but there are many examples of important progress made using mitochondrial sequences. We undertook a systematic performance analysis of mitochondrial and nuclear sequence partitions taken from a representative sample of dipteran species. When analysed alone, mitochondrial genes generally performed less well than nuclear genes; however, these genes resolved some branches for which nuclear genes failed. Moreover, the combined use of mitochondrial and nuclear sequences produced superior results without artifacts for nodes where mitochondrial and nuclear gene data generated conflicting topologies. These findings strongly advocate the inclusion of mitochondrial sequences, even in deep phylogeny reconstruction. Comparison of tree support between our and previous analyses identified robustly supported high-confidence clades in the Diptera, but also revealed problematic groupings in need of further analysis.
dc.relation.haspart doi:10.5061/dryad.f7m5t/1
dc.relation.haspart doi:10.5061/dryad.f7m5t/2
dc.relation.isreferencedby doi:10.1111/j.1365-3113.2012.00657.x
dc.subject Mitochondrion
dc.subject Systematics
dc.title Data from: Shaking the Diptera tree of life: performance analysis of nuclear and mitochondrial sequence data partitions
dc.type Article *
dwc.ScientificName Diptera
dc.contributor.correspondingAuthor Caravas, Jason
prism.publicationName Systematic Entomology

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Title Concatenated mitochondial gene alignment (Gblock)
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Description Mitochondrial genes used in this study, Gblock data set. See Supplemental Table S2. ATP6, 1, 666; ATP8, 667, 747; Cox1, 748, 2274; Cox2, 2275, 2955; Cox3, 2956, 3738; CytB, 3739, 4869; ND1, 4870, 5793; ND2, 5794, 6651; ND3, 6652, 6999; ND4, 7000, 8307; ND4L, 8308, 8601; ND5, 8602, 10305; ND6, 10306, 10812.
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Title Concatenated nuclear gene alignment (Gblock)
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Description Nuclear genes used in this study, Gblock data set. See Supplemental Table S2. CAD, 1, 3291; PGD, 3292, 3999; SNF, 4000, 4206; AATS, 4207, 5232; PER, 5233, 5778; SINA, 5781, 6125; TPI, 6126, 6527.
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