Majority Does Not Rule: The Trouble with Majority-Rule Consensus Trees

Sharkey, Michael J.; Leathers, Jason W.

doi:10.1006/clad.2001.0174

Cited by 25 publications

(14 citation statements)

References 6 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The majority of the most parsimonious trees (86%) place most members of subf. Bromelioideae as sister to “Core Puya ,” though majority rule consensus trees should not be interepreted as indicative of support of relationships (Sharkey and Leathers, 2001). Subgenus Puya clearly is not monophyletic as P. boliviensis, P. castellanosii , and P. raimondii are placed in “Core Puya ,” whereas P. chilensis, P. alpestris , and P. berteroniana are placed in “Chilean Puya .” Species monophyly is not recovered within “Chilean Puya ” although branch lengths are very short.…”

Section: Resultsmentioning

confidence: 99%

Phylogenetics of Puya (Bromeliaceae): Placement, major lineages, and evolution of Chilean species

Jabaily

Sytsma

2010

American J of Botany

109

View full text Add to dashboard Cite

Puya (Bromeliaceae), a large genus of terrestrial bromeliads found throughout a range of elevations in the Andes and central Chile, is of great systematic, evolutionary, and biogeographical interest. This first molecular phylogenetic study of Puya and related bromeliads employs matK, trnS-trnG, rps16, and PHYC sequences. Chloroplast DNA, nuclear DNA, and combined DNA data all place Puya closest to subfamily Bromelioideae. Nuclear and combined data support Puya as monophyletic, and the two subgenera are nonmonophyletic. All data indicate that the Chilean species of Puya are early diverging within the genus, consistent with Chilean genera as the first-diverging members of subfamily Bromelioideae. Central Chile is identified as a key region for understanding the biogeographical history of Bromeliaceae, as is true with other South American plant groups. A complicated history involving early chloroplast capture and later secondary hybridization and/or introgression is seen in Chilean lineages. These events help explain the occurrence of sterile inflorescence tips, floral color and shape, and leaf indument. The ecological radiation of Puya appears coincident with the final, recent rise of the Andes and subsequent high-elevation habitat diversification. Additionally, geographical distribution, rather than moisture or elevational adaptations, correlates to species relationships. Evolution of CAM photosynthesis has occurred multiple times.

show abstract

Section: Resultsmentioning

confidence: 99%

Phylogenetics of Puya (Bromeliaceae): Placement, major lineages, and evolution of Chilean species

Jabaily

Sytsma

2010

American J of Botany

109

View full text Add to dashboard Cite

show abstract

“…Wheeler, 1995; Whiting et al ., 1997; Prendini, 2000c; Wheeler et al ., 2001), results of the sensitivity analyses are summarized by means of 50% majority rule (Margush & McMorris, 1981), or 50% compromise ( sensu Nixon & Carpenter, 1996), and strict consensus trees. The problems with using majority rule consensus trees as a means of resolving ambiguous strict consensus trees have been well elaborated by Nixon & Carpenter (1996) and Sharkey & Leathers (2001), among others. Their use in the present context is justified on the grounds that they serve a different purpose.…”

Section: Methodsmentioning

confidence: 99%

A new genus and species of bothriurid scorpion from the Brandberg Massif, Namibia, with a reanalysis of bothriurid phylogeny and a discussion of the phylogenetic position of Lisposoma Lawrence

Prendini

2003

Systematic Entomology

View full text Add to dashboard Cite

Abstract. Brandbergia haringtoni, a new genus and species of bothriurid scorpion, is described from the Brandberg Massif, northwestern Namibia. A cladistic analysis, based on seventy-four morphological characters scored for thirty-one exemplar species representing all genera of Bothriuridae, and one genus from each of the six remaining families of Scorpionoidea, was conducted to test the phylogenetic placement of the new genus and whether it affects the internal relationships of Bothriuridae. The available data demonstrate, under a range of weighting regimes, that the new genus is the most basal bothriurid, and confirm the scheme of relationships among the remaining bothriurid genera that was recovered in a previous analysis: (Brandbergia (Lisposoma (Thestylus (Phoniocercus (Tehuankea (Cercophonius Urophonius) (Bothriurus Brachistosternus Orobothriurus Centromachetes (Timogenes Vachonia))))))). On the basis of this evidence, LourencË o's recent proposal of family Lisposomidae for Lisposoma is rejected and Lisposomidae is synonymized with Bothriuridae. The implications of the phylogeny for understanding the biogeography of Bothriuridae are discussed.

show abstract

“…So the topology presented in Xi et al's (2014) figure 2, which is the primary basis for their conclusion that the clade of (Amborella, Nuphar) is sister to the rest of the angiosperms, was only inferred as optimal for the complete matrix of 310 nuclear genes by STAR. Xi et al (2014) reported that the clade of (Amborella, Nuphar) was highly supported (99% partitioned bootstrap support) by MP-EST, but even 99% resampling support does not guarantee that a clade is actually supported by the complete, original data set (Goloboff and Farris, 2001;Sharkey and Leathers, 2001;Goloboff and Pol, 2005;Simmons and Freudenstein, 2011). Only those clades present in the strict consensus of all equally optimal trees are unambiguously supported by the data (Nixon and Carpenter, 1996b;Goloboff et al, 2003).…”

Section: Gene-tree-based Phylogenetic Analysesmentioning

confidence: 99%

Coalescence vs. concatenation: Sophisticated analyses vs. first principles applied to rooting the angiosperms

Simmons

Gatesy

2015

Molecular Phylogenetics and Evolution

179

View full text Add to dashboard Cite

Majority Does Not Rule: The Trouble with Majority-Rule Consensus Trees

Cited by 25 publications

References 6 publications

Phylogenetics of Puya (Bromeliaceae): Placement, major lineages, and evolution of Chilean species

Phylogenetics of Puya (Bromeliaceae): Placement, major lineages, and evolution of Chilean species

A new genus and species of bothriurid scorpion from the Brandberg Massif, Namibia, with a reanalysis of bothriurid phylogeny and a discussion of the phylogenetic position of Lisposoma Lawrence

Coalescence vs. concatenation: Sophisticated analyses vs. first principles applied to rooting the angiosperms

Contact Info

Product

Resources

About