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Table 1 Results of canonical phylogenetic ordination of AFLP data

From: Reticulate sympatric speciation in Cameroonian crater lake cichlids

   Variation explained¶  
  Node ¥ Marginal effects† λ1 Conditional effects‡ λa P-Value#
Phylogenetic groups according to mtDNA-based phylogeny     
S. galilaeus sensu lato incl. Barombi taxa * 1 0.15 0.10 0.000
S. galilaeus sensu lato w/o S. g. sanagaensis incl. Barombi taxa 2 0.12 0.05 n.s.
S. galilaeus w/o S. g. sanagaensis excluding Barombi taxa 3 0.15 - n.s.
S. g. multifasciatus * 4 0.18 0.13 0.000
S. galilaeus w/o S. g. sanagaensis and S. g. multifasciatus 5 0.12 - n.s.
S. galilaeus "Meme" * 6 0.10 0.08 0.000
"Cross-clade" + S. g. "Niger" 7 0.10 - n.s.
"Cross-clade" * 8 0.09 0.07 0.001
"Barombi Mbo clade" * 9 0.18 0.11 0.000
Stomatepia ssp.* 10 0.08 0.06 0.000
St. mongo * 11 0.07 0.05 0.054
St. mariae * 12 0.06 0.05 0.008
St. pindu * 13 0.05 - n.s.
St. mariaeSt. pindu 14 0.06 - n.s.
Pungu maclareniKonia ssp. 15 0.07 0.05 0.025
Konia ssp. * 16 0.06 0.06 0.001
Pungu maclareni * 17 0.06 - n.s.
Konia eisentrauti * 18 0.05 0.04 n.s.
Konia dikume * 19 0.05 - n.s.
Myaka myaka * 20 0.05 0.04 n.s.
Sarotherodon lohbergeri * 21 0.06 0.04 n.s.
Sarotherodon steinbachi * 22 0.05 - n.s.
"Barombi Sarotherodon clade" 23 0.08 - n.s.
Phylogenetic groups according to AFLP-phylogeny     
Myaka + S. caroli/S.linnellii 27 0.07 - n.s.
Pungu + S. lohbergeri/S. steinbachi 28 0.07 - n.s.
St. mongo + St. pindu 29 0.07 - n.s.
S. galilaeus s. l. incl. Barombi taxa w/o S.g.multifasciatus and S.g. "Niger" 30 0.21 0.21 0.000
S. lohbergeri + S. steinbachi 31 0.06 - n.s.
S. linnellii + S. caroli 32 0.06 - n.s.
S. sp. "mudfeeder" + S. sp. "bighead" 33 0.08 0.05 0.013
Hypothetical ancient syngameons according to conflict between mtDNA-based and AFLP-based phylogenetic hypotheses groups ¥¥    
P. maclareni + Konia ssp. + S. lohbergeri + S. steinbachi red (24) 0.08 0.06 0.002
M. myaka + S. caroli + S. linnellii + S. lohbergeri + S. steinbachi green (25) 0.09 - n.s.
S. g. sanagaensis + S. galilaeus w/o S. g. multifasciatus. S. g. "Niger" blue (26) 0.15 - n.s.
  1. Each phylogenetic group as identified by nodes in phylogenetic analyses of mtDNA-, or AFLP-data or by the conflict between the data sets (hypothetical syngameons) was tested for their explanatory value in explaining variance in the AFLP data set.
  2. ¥ Node numbers correspond to encircled node numbers for mtDNA-clades and AFLP-clades supported in Fig. 1.
  3. ¥¥ Groups refer to hypothetical syngameons as indicated by coloured blocks in Fig. 1a and b.
  4. ¶ "Variation explained" refers to eigenvalues of each phylogenetic group that explain part of the variation in the pruned AFLP-data (2355 loci / 33 samples identical to those in Fig. 1a. Sum of all unconstrained eigenvalues was 1.667, sum of all canonical eigenvalues 1.179.
  5. † Marginal effects refer to eigenvalues ("fit") of each phylogenetic group if taken singly as the only variable on the pruned AFLP data set.
  6. ‡ Conditional effects refer to the increase in eigenvalues ("additional fit") of each phylogenetic group as selected by automatic forward selection.
  7. # P-values refer to the significance level of the conditional effects as obtained with a Monte Carlo permutation test under the full model with 9999 random permutations.
  8. * mtDNA-clades as indicated in Fig. 1b that are compatible with clades as identified by the AFLP phylogenetic tree in Fig. 1a.