Table 2. Descriptive summary of SNPs identified on branches of early divergence nested clades across the phylogenetic tree of analysed USA300 isolates. The phylogeny is presented in Fig. 4.
| Clade | FPR3757 Position | SNP Type* | CDS ID | Product | Base change | AA change |
|---|---|---|---|---|---|---|
| 1 | 2300219 | NS | SAUSA300_2126 | drug resistance transporter, EmrB/QacA subfamily | A -> G | V156A |
| 2 | 150941 | NS | SAUSA300_0132 | glycosyl transferase | T -> A | D271E |
| 714167 | I | − | − | A -> G | − | |
| 1453525 | NS | SAUSA300_1322 | virulence factor C, CvfC3 | G -> A | A281V | |
| 1877205 | NS | SAUSA300_1701 | NAD(FAD)-utilizing dehydrogenase | G -> A | R228H | |
| 1915352 | I | − | − | A -> G | − | |
| 3 | 386867 | I | − | − | A -> T | − |
| 4 | 906507 | I | − | − | C -> A | − |
| 1693739 | NS | SAUSA300_1543 | oxygen-independent coproporphyrinogen III oxidase | C -> T | A145T | |
| 1908169 | NS | SAUSA300_1725 | transaldolase | C -> T | V6I | |
| 2230768 | S | SAUSA300_2068 | hypothetical protein | T -> C | − | |
| 2690087 | NS | SAUSA300_2489 | antibiotic transport-associated protein | G -> T | Q795K | |
| 5 | 7282 | NS | SAUSA300_0006 | DNA gyrase GyrA | C -> T | S84L |
| 1374405 | NS | SAUSA300_1251 | DNA topoisomerase ParC/GrlA | C -> A | S80Y | |
| 6 | 837108 | NS | SAUSA300_0750 | hypothetical protein | T -> G | D17E |
| 1074815 | NS | SAUSA300_0980 | putative membrane protein | A -> G | N71D |
* SNP type: NS – non-synonymous; I – intergenic; S – synonymou.