Table 4. Nucleotide polymorphisms shared by strains CDC Philadelphia-2, -3, -4, and ATCC Philadelphia-1 relative to the NCBI Philadelphia-1 reference sequence.
| Nucleotide Polymorphism | No. of Polymorphisms (nt) | Nucleotide position | Nucleotide position in NCBI Philadelphia-1 | Associated ORF's | Potential Translational Importance |
|---|---|---|---|---|---|
| C → T | 1 | Ph-2: 134,596 | 134,596 | Glycine dehydrogenase subunit 1 (lpg0116) | Synonomous |
| Ph-3: 134,597 | |||||
| Ph-4: 134,596 | |||||
| ATCC Ph-1: 134,596 | |||||
| A → G | 1 | Ph-2: 648,327 | 610,437 | 23S rRNA (lpg0571) | Unknown |
| Ph-3: 610,437 | |||||
| Ph-4: 648,327 | |||||
| ATCC Ph-1: 648,327 | |||||
| C → T | 1 | Ph-2: 761,121 | 713,029 | Major facilitator superfamily multidrug-efflux transporter (lpg0662) | T450I |
| Ph-3: 723,230 | |||||
| Ph-4: 761,121 | |||||
| ATCC Ph-1: 761,121 | |||||
| T → C | 1 | Ph-2: 896,048 | 847,798 | Hypothetical protein (lpg0774) | Synonymous |
| Ph-3: 858,157 | |||||
| Ph-4: 896,048 | |||||
| ATCC Ph-1: 896,048 | |||||
| T → A | 1 | Ph-2: 1,468,719 | 1,420,470 | DNA-binding response regulator (lpg1292) | H99L |
| Ph-3: 1,430,827 | |||||
| Ph-4: 1,468,717 | |||||
| ATCC Ph-1: 1,468,719 | |||||
| G → A | 1 | Ph-2: 1,636,663 | 1,588,414 | Mg2+ and Co2+ transporter CorC (lpg1439) | Synonymous |
| Ph-3: 1,598,772 | |||||
| Ph-4: 1,636,661 | |||||
| ATCC Ph-1: 1,636,663 | |||||
| G → T | 1 | Ph-2: 1,726,062 | 1,677,813 | Toxin secretion ATP-binding protein (lpg1515) | W387L |
| Ph-3: 1,688,170 | |||||
| Ph-4: 1,726,060 | |||||
| ATCC Ph-1: 1,726,062 | |||||
| T → G | 1 | Ph-2: 1,726,239 | 1,688,349 | Toxin secretion ATP-binding protein (lpg1515) | `I446R |
| Ph-3: 1,688,347 | |||||
| Ph-4: 1,726,237 | |||||
| ATCC Ph-1: 1,726,239 | |||||
| Insertion | 10 | Ph-2: 1,726,519 | 1,678,270 | Toxin secretion ATP-binding protein (lpg1515) | Framshift removes stop codon and creates fusion of lpg1515 and lpg1516 |
| Ph-3: 1,688,627 | |||||
| Ph-4: 1726,517 | |||||
| ATCC Ph-1: 1,726,519 | |||||
| C → T | 1 | Ph-2: 2,370,109 | 2,321,850 | Hypothetical protein (lpg2077) | G1102R |
| Ph-3: 2,332,216 | |||||
| Ph-4: 2,370,106 | |||||
| ATCC Ph-1: 2,370,109 | |||||
| VGR-1 | 541 | Ph-2: 2,445,926–2,459,183 | 2,397,667–2,410,925 | Region of high nucleotide variability (lpg2149-lpg2156) | Various Indels and substitutions |
| 2,408,033–2,421,290 | |||||
| Ph-4: 2,445,923–2,459,180 | |||||
| ATCC Ph-1: 2,445,926–2,459,183 | |||||
| T → C | 1 | Ph-2: 2,592,341 | 2,544,083 | Hypothetical protein (lpg2244) | Synonymous |
| Ph-3: 2,554,448 | |||||
| Ph-4: 2,592,338 | |||||
| ATCC Ph-1: 2,592,341 | |||||
| T → A | 1 | Ph-2: 2,638,436 | 2,590,178 | LysR family transcriptional regulator (lpg2288) | F136I |
| Ph-3: 2,600,543 | |||||
| Ph-4: 2,638,433 | |||||
| ATCC Ph-1: 2,638,436 | |||||
| VGR-2 | 2,380 | Ph-2: 3,076,382–3,123,074 | 3,028,124–3,074,774 | Region of high nucleotide variability (lpg2680-lpg2721) | Various Indels and substitutions |
| Ph-3: 3,038,486–3,085,179 | |||||
| Ph-4: 3,076,378–3,123,069 | |||||
| ATCC Ph-1: 3,076,382–3,123,073 |
Ph-1, CDC Philadelphia-1; Ph-2, Philadelphia-2; Ph-3, Philadelphia-3; Ph-4, Philadelphia-4; ATCC Ph-1, ATCC Philadelphia-1