Table 6.
Functional Analyses of Genes under Positive Selection in Geosmithia morbida Detected by the Branch-Site Model in PAML 4.8
| Gene Number | Function | dN/dS | Transmembrane Domain (N) |
|---|---|---|---|
| 3078 | Takes part in intracellular signaling, protein recruitment to various membranes | 2.04 | 0 |
| 2666 | Involved in receptor-mediated endocytosis and vesicle trafficking | 2.01 | 0 |
| 563 | Unclear function | 1.94 | 1 |
| 2194 | Unknown function | 1.94 | 0 |
| 801 | Catalyzes the transfer of electrons from ferrocytochrome c to oxygen converting the cytochrome c into water | 1.93 | 1 |
| 3944 | Involved in methylation and have a wide range of substrate specificity | 1.90 | 5 |
| 5058 | Involved in ubiquitination of proteins target for degradation | 1.90 | 0 |
| 1843 | Involved in heat-shock response | 1.86 | 0 |
| 521 | Involved in damage DNA binding and repair | 1.85 | 0 |
| 5111 | Involved in receptor-mediated endocytosis and vesicle trafficking | 1.84 | 0 |
| 4128 | Catalyzes the hydrolysis of esters | 1.84 | 0 |
| 923 | Hydrolases the peptide bond at the C-terminus of ubiquitin | 1.83 | 1 |
| 4405 | Involved in transport and metabolism of lipids | 1.83 | 1 |
| 3137 | Part of proteins with diverse functions such as cell-cycle regulators, signal transducers, transcriptional initiators | 1.78 | 0 |
| 4359 | Unknown function | 1.73 | 2 |
| 5639 | Involved in rRNA synthesis | 1.67 | 0 |
| 5 | Involved in vesicular transport | 1.63 | 0 |
| 624 | Involved in transfer of glucose molecules that are part of a larger glycosylation machinery | 1.62 | 9 |
| 3929 | Unknown function but associates with GRAM domain found in glucosyltransferases and other membrane affiliated proteins | 1.61 | 0 |
| 1456 | Involved in DNA repair and replication | 1.59 | 0 |
| 4829 | Form cAMP | 1.59 | 0 |
| 254 | Major ATP transporters | 1.59 | 2 |
| 4888 | Unknown function | 1.54 | 0 |
| 5426 | Hydrolyzes nonubiquitinated peptides | 1.54 | 0 |
| 5709 | Transcription factors | 1.50 | 0 |
| 859 | May be involved in the timing of nuclear migration | 1.50 | 0 |
| 5703 | Cleave peptide bonds in other proteins | 1.47 | 6 |
| 5255 | Heat shock protein involved in induced stress response to ethanol | 1.46 | 3 |
| 5704 | Regulates gene expression during oxidative stress caused by the host plant | 1.46 | 0 |
| 2485 | Transfer phosphates | 1.39 | 0 |
| 6116 | Hydratase and/or isomerase | 1.38 | 0 |
| 5266 | Breaks down actin, cell membrane deformations | 1.34 | 0 |
| 5000 | Catalyzes the first step in histidine biosynthesis | 1.34 | 0 |
| 3326 | Involved in de novo synthesis of nucleotide purine | 1.32 | 0 |
| 2142 | E2 enzymes that catalyze the binding of activated ubiquitin to the substrate protein. The substrate proteins are targeted for degradation by the proteasome | 1.24 | 0 |
| 581 | Ribosomal protein | 1.17 | 0 |
| 5948 | Involved in initiation of transcription | 1.14 | 1 |
| 3700 | Part of the TOM complex that recognizes and regulates the transport of mitochondrial precursor molecules from the cytosol to the intracellular space of the mitochondrion | 1.03 | 0 |
Note.—The gene number corresponds to the sequence ID in the G. morbida protein file available at DRYAD. The P-values for each dN/dS ratio is < 0.05. dN/dS is the ratio of nonsynonymous substitutions to synonymous changes.