Table 2. Branch-specific likelihood analyses for lineage comparisons.
| A. | B. | ||||
| Gene | Model | lnL | P-value from LRT | lnL | P-value from LRT |
| acp1 | Null | −2282.941522 | 1 | −2279.105981 | 1 |
| Alternative | −2282.941522 | −2279.105981 | |||
| asps | Null | −8532.680653 | 1 | −8529.262603 | 1 |
| Alternative | −8532.680653 | −8529.262603 | |||
| oah | Null | −4187.390913 | 1 | −4174.559675 | 1 |
| Alternative | −4187.390913 | −4174.559675 | |||
| pac1 | Null | −6083.830891 | 1 | −6067.333617 | 1 |
| Alternative | −6083.830891 | −6067.333617 | |||
| pg1 | Null | −2542.400238 | 0.958 | −2542.400236 | 0.958 |
| Alternative | −2542.398874 | −2542.398873 | |||
| pg3 | Null | −3954.533847 | 0.998 | ||
| Alternative | −3954.533843 | ||||
| pg5 | Null | −3901.085817 | 1 | ||
| Alternative | −3901.085817 | ||||
| pg6 | Null | −3980.295815 | 0.022 * | −3977.686693 | 1 |
| Alternative | −3977.667451 | −3977.686693 |
The null model fixes the dN/dS ratio across all lineages in the phylogeny, while the alternative model allows for a different ω value for the foreground branch(es). P-values that are statistically significant are indicated with an asterisk.
A
Comparisons of the biotrophic lineage(s) to all other necrotrophic lineages.
B
Comparisons of all host-specialist lineages to host-generalist lineages in the Sclerotiniaceae.