Noise and Incongruence: Interpreting Results of the Incongruence Length Difference Test

Dolphin, Konrad; Belshaw, Robert; Orme, C. David L.; Quicke, Donald L. J.

doi:10.1006/mpev.2000.0845

Cited by 248 publications

(161 citation statements)

References 27 publications

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“…When analyzed independently, each of the gene regions (trnL-F, trnK, ITS, RPB2) and morphology alone provided little resolution at the tips but supported three major basal clades plus the monophyly of Dimerocostus ϩ Monocostus and Tapeinochilos. Congruence of the three data partitions (chloroplast, nuclear, morphology) could not be rejected by the ILD test (p ϭ 0.1) nor was incongruence detected among nuclear (ITS vs. RPB2; p ϭ 0.15) or among chloroplast (trnK vs. trnL-F; p ϭ 0.08) regions, indicating that phylogenetic signal from the various partitions could not be considered in conflict (but see Dolphin et al 2000). The lack of well-supported resolution for each partition analyzed alone likely contributed to the lack of conflict observed in the results of the ILD test.…”

Section: Resultsmentioning

confidence: 99%

Systematics and Evolution of the Tropical Monocot Family Costaceae (Zingiberales): A Multiple Dataset Approach

Specht¹

2006

issn: 0363-6445

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ABSTRACT.A phylogenetic analysis of molecular (ITS, trnL-F, trnK including the matK coding region) and morphological data is presented for the pantropical monocot family Costaceae (Zingiberales), including 65 Costaceae taxa and two species of the outgroup genus Siphonochilus (Zingiberaceae). Taxon sampling included all four currently described genera in order to test the monophyly of previously proposed taxonomic groups. Sampling was further designed to encompass geographical and morphological diversity of the family to identify trends in biogeographic patterns and morphological character evolution. Phylogenetic analysis of the combined data reveals three major clades with discrete biogeographic distribution: (1) South American, (2) Asian, and (3)

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Section: Resultsmentioning

confidence: 99%

Systematics and Evolution of the Tropical Monocot Family Costaceae (Zingiberales): A Multiple Dataset Approach

Specht¹

2006

issn: 0363-6445

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“…The molecular evolution model used for the ME and ML tree was selected according to the results of Modeltest 3.7 (Posada and Crandall, 1998) with the AIC criterion. Dolphin et al (2000) showed that even when ILD (Farris et al, 1995) tests reveal significant differences between two fragments it is frequently preferable to analyse them together. Thus the two fragments were combined in a single data set.…”

Section: Methodsmentioning

confidence: 99%

Reclassification of Lepadogaster candollei based on molecular and meristic evidence with a redefinition of the genus Lepadogaster

Henriques

Levy

Pereira

et al. 2008

Molecular Phylogenetics and Evolution

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“…However, because interpretation of test results is somewhat unclear and false significance or insignificance can be attributed under certain circumstances (Dolphin et al 2000;Barker and Lutzoni 2002;Yoder et al 2001;Ramirez 2006), and because the ITS and trnL-trnF tree topologies were mostly congruent and observed conflicts were very weakly supported, analysis of the combined data was undertaken. Only the 25 taxa for which data from both regions was available were included, which meant that the representation of most taxa was reduced to one or two individuals.…”

Section: Combined Its -Trnl-trnfmentioning

confidence: 99%

Evidence for convergent evolution among phylogenetically distant rare species of Tetratheca (Elaeocarpaceae, formerly Tremandraceae) from Western Australia

Butcher

Byrne²,

Crayn

2007

Aust. Systematic Bot.

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Abstract. Morphological and molecular investigations of taxon relationships among rare species of Tetratheca Sm. occurring near Koolyanobbing, Western Australia, have confirmed the distinctness of T. aphylla F.Muell., T. harperi F.Muell. and T. paynterae Alford and identified three new rare taxa from collections affiliated with T. aphylla and T. paynterae. The recognition of these taxa at specific and sub-specific ranks is based on their different degrees of morphological and molecular divergence, combined with geographic disjunction. Cladistic analysis of nrDNA internal transcribed spacer and cpDNA trnL-trnF sequences from a range of Tetratheca species from Western Australia and the eastern states indicates that T. aphylla, T. harperi and T. paynterae belong to three separate evolutionary lineages and that the endemism displayed among these taxa to small, disjunct ranges within the same geographic area, is a result of in situ speciation due to historical fragmentation. These results exemplify the extremely high conservation value of the Yilgarn banded ironstone ranges. The superficial similarity among the study taxa in having a 'leafless' habit can be seen to be adaptive convergence in response to the marginal and semi-arid environments in which they occur, and this character is highly homoplastic within the genus.

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Noise and Incongruence: Interpreting Results of the Incongruence Length Difference Test

Cited by 248 publications

References 27 publications

Systematics and Evolution of the Tropical Monocot Family Costaceae (Zingiberales): A Multiple Dataset Approach

Systematics and Evolution of the Tropical Monocot Family Costaceae (Zingiberales): A Multiple Dataset Approach

Reclassification of Lepadogaster candollei based on molecular and meristic evidence with a redefinition of the genus Lepadogaster

Evidence for convergent evolution among phylogenetically distant rare species of Tetratheca (Elaeocarpaceae, formerly Tremandraceae) from Western Australia

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