Colletotrichum gloeosporioides
publication ID |
https://doi.org/ 10.11646/phytotaxa.394.4.6 |
persistent identifier |
https://treatment.plazi.org/id/03AE6A28-AD3B-5749-FF31-F9A7FE93FE5B |
treatment provided by |
Felipe |
scientific name |
Colletotrichum gloeosporioides |
status |
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C. gloeosporioides View in CoL species complex
The phylogram ( Fig. 2 View FIGURE 2 ) shows the identified isolates in the C. gloeosporioides species complex. The combined aligned data matrix (ACT, CAL, CHS-1, GAPDH, ITS, TUB2 and GS) contained 45 isolates including the outgroup ( C. boninense MAFF 305972* and C. hippeastri CBS 241.78*). Forty-three reference sequences were downloaded from GenBank ( Table 1) and two isolates were obtained from V. dunalianum var. urophyllum in this study. The multi-gene dataset (gene boundaries of ACT: 1-275, CAL: 276-1008, CHS-1: 1009-1339, GAPDH: 1340-1581, ITS: 1582-2151, TUB2: 2152-2741 and GS: 2742-3522) comprised 3522 characters including the alignment gaps, of which 656 were parsimony-informative, 485 parsimony-uninformative and 2381 constant. The MP analysis of sequences resulted in one most parsimonious tree ( Fig. 2 View FIGURE 2 ) with a length (TL) of 1914 steps, consistency index (CI) of 0.730, retention index (RI) of 0.810 and homoplasy index (HI) of 0.270. For the Bayesian analysis, MrModeltest 2.3 with the Akaike information criterion (AIC) was used to choose a substitution model for the two datasets. The model GRT+ I + G were chosen for the combined sequences. The analyses of the final MCMC chains were run from random trees for 1,000,000 generations and sampled every 100 generations. The tree generated from Bayesian analysis confirmed the tree topology obtained with parsimony. Two isolates clustered with C. henanense and formed a distinct clade with a high bootstrap support/posterior probability value (bootstrap support BS> 70 and Bayesian posterior probabilities PP> 0.95). A pairwise homoplasy index (PHI) test using a seven-gene dataset (ACT, CAL, CHS-1, GAPDH, ITS, TUB2 and GS) was further performed to determine the recombination level between C. yulongense and its phylogenetically closely related species, C. henanense . The PHI test did not find statistically significant evidence for recombination (Φw = 1). Based on the result no significant recombination events could be detected between C. yulongense and C. henanense ( Fig. 3 View FIGURE 3 ).
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