Table 2.
Summary of characteristics of the four marker datasets used to conduct molecular phylogenetic analyses. All analyses were run from datasets consisting of the living cultures of Colletotrichum strains, as listed in Table 1.
General dataset parameters | Apn2 | ITS | Mat1 | Sod2 | All data |
---|---|---|---|---|---|
DNA characters | 798 | 401 | 1297 | 519 | 3015 |
Coded gap characters | 2 | 7 | 61 | 13 | 84 |
Total aligned characters | 800 | 408 | 1358 | 532 | 3098 |
Constant characters | 494 | 276 | 533 | 306 | 1609 |
Parsimony informative characters | 275 | 54 | 691 | 189 | 1209 |
PHI tests for recombination1 | |||||
All C. caudatum s.l. isolates | YES | NO | YES | YES | |
p = 0.0086 | p = 0.2487 | p = 0 | p = 0 | ||
C. caudatum s.l. isolates, excluding incongruent taxa2 | NO | NO | NO | ||
YES | p = 1.0 | p = 1.0 | p = 1.0 | ||
p = 0.0055 | |||||
Delta score3 | 0.164 | 0.067 | 0.188 | 0.256 | |
Q-residual score3 | 0.022 | 0.005 | 0.08 | 0.122 |
1Pairwise homoplasy index (PHI) test performed using a dataset composed of Colletotrichum in the Caudatum subaggregate: C. alcornii, C. baltimorense, C. caudatum, C. somersetense, C. zoysiae, and isolates CBS112172 and MAFF 305700.
2Incongruent taxa = CBS113172 and NY07-CC04.
3Where delta score and Q-residual score=0 when distances between taxa exactly fit a tree. Scores ranging from 0 (tree-like) to 1 (non-tree-like).