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Table 2 Results of Shimodaira-Hasegawa (SH) tests for alternative hypotheses.

From: Loss of the flagellum happened only once in the fungal lineage: phylogenetic structure of Kingdom Fungi inferred from RNA polymerase II subunit genes

  SH test
Hypothesisa -lnL Δ-lnL P-value Rejected b
Bayesian phylogeny (= ML tree) -78347.57 0 1.000 best
Microsporidia sister to Fungi (MP tree) -78378.47 30.90 0.297 no
Microsporidia clustered with Blastocladiales -78407.55 59.98 0.030 yes
Microsporidia clustered to other Members of Chytridiomycota -78392.05 44.48 0.156 no
Microsporidia clustered with Zygomycota -78437.65 90.08 0.002 yes
Microsporidia clustered with Dikaryomycota -78453.52 105.95 0.002 yes
Microsporidia clustered with Animals -78424.12 76.55 0.010 yes
Glomales sister to Dikaryomycota -78383.99 36.42 0.248 no
Blastocladiales sister to zygo_trichomycetes -78418.76 71.19 0.009 yes
Blastocladiales sister to Zygomycota -78429.05 81.48 0.019 yes
monophyletic Chytridiomycota -78376.30 28.73 0.367 no
  1. Note: lnL, natural log likelihood; P values, the confidence limit for rejection of the alternative tree topology.
  2. a. The maximum likelihood tree (ML tree), the most parsimonious tree (MP tree), and the most likely trees under the constrained conditions.
  3. b. Best, the tree with the highest likelihood in comparison; Yes, rejected by maximum likelihood (P < 0.05); No, not rejected by maximum likelihood.