Table 2

Effects of reduced taxon and site sampling

Supports for Great Ape parasites sister-group of:


Number of Taxa

Genes

Rodent

Primate+Rodent

Primate

PP,

SH,

BS

PP,

SH,

BS

PP,

SH,

BS


CytB

0.221,

*,

0.306

0.612,

0.29,

0.444

0.166,

*,

0.250

8 Taxa

Cox1

0.152,

*,

0.374

0.848,

0.45,

0.610

0.000,

*,

0.016

Cox3

0.922,

0.63,

0.659

0.002,

*,

0.013

0.070,

*,

0.313

Conc.

0.971,

0.58,

0.655

0.029,

*,

0.316

0.000,

*,

0.029


CytB

0.911,

0.77,

0.548

0.074,

*,

0.225

0.013,

*,

0.009

33 Taxa

Cox1

0.022,

*,

0.336

0.976,

0.61,

0.606

0.001,

*,

0.043

Cox3

0.985,

0.90,

0.801

0.003,

*,

0.011

0.012,

*,

0.092

Conc.

0.999,

0.93,

0.821

0.001,

*,

0.174

0.000,

*,

0.004


Dependency of clade support on a reduced (8 Taxa) or extended (33 Taxa) taxon sampling, and on individual (CytB, Cox1 and Cox3 genes) or concatenated (Conc.) gene analyses. Models GTRnt + Γ4 + I and GTRnt + Γ4 were applied to nucleotide alignments, under maximum-likelihood (ML) and Bayesian (BI) methods, respectively. Cells display support as [PP, SH, BS] with PP: posterior probability (BI), SH: Shimodaira-Hasegawa-like support (ML), and BS: bootstrap support (ML). "*": not applicable. Main lineages of mammalian parasites are defined according to their host preference: "Rodent", "Primate" and "Great Ape" (see Additional file 1, Table 1).

Blanquart and Gascuel BMC Evolutionary Biology 2011 11:70   doi:10.1186/1471-2148-11-70

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