Table 3.
Variable sites in the DHFR-TS and TR sequences from strains of isoenzyme types 30, 32, 35, 36, 39, and 43
| DHFR-TS | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | |||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 1 | 2 | 2 | 2 | 3 | 3 | 4 | 4 | 4 | 4 | 4 | 5 | 5 | 6 | 7 | 9 | 0 | 0 | 1 | 1 | 2 | 2 | 3 | 4 | |
| 5 | 6 | 2 | 8 | 9 | 2 | 3 | 0 | 1 | 4 | 6 | 6 | 2 | 4 | 2 | 8 | 9 | 4 | 9 | 2 | 5 | 4 | 9 | 5 | 1 | |
| Strain/Site | 3 | 3 | 2 | 8 | 4 | 4 | 4 | 8 | 0 | 6 | 2 | 8 | 2 | 9 | 4 | 3 | 6 | 7 | 5 | 5 | 8 | 8 | 6 | 6 | 6 |
| 35-M6241 cl6 | C | G | C | T | C | G | C | G | A | A | T | C | T | C | G | C | A | C | G | A | C | T | A | G | G |
| 36-M5631 cl5 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . |
| 36-CM 17 | T | . | . | . | . | . | T | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
| 36-X110/8 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | T | . |
| 39-PSC-O H1 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | G | . | T | . |
| 39-SO3 cl5 H1 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | T | . |
| 43-CL F11F5 H1 | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
| 43-Tulahuen cl2 H1 | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
| 30-Esmeraldo cl3 H1 | T | T | T | C | . | . | . | . | G | . | C | T | C | . | . | . | G | . | T | G | A | G | G | . | . |
| 30-Esmeraldo cl3 H2 | T | T | T | C | . | . | . | . | G | . | C | T | C | T | . | T | G | . | T | G | A | G | . | . | |
| 32-MSC2 H1 | T | T | T | C | . | . | . | . | G | . | C | . | C | . | . | T | G | . | T | G | A | G | G | . | A |
| 32-MSC2 H2 | T | T | T | C | . | . | . | . | G | . | C | T | C | . | . | . | G | . | T | G | A | G | G | . | . |
| 32-TU18 cl2 H1 | T | T | T | C | . | . | . | . | G | . | C | . | C | . | . | T | G | . | T | G | A | G | G | . | . |
| 32-TU18 cl2 H2 | T | T | T | C | T | C | . | . | G | . | C | . | C | . | . | T | G | . | T | G | A | G | G | . | . |
| 39-SO3 cl5 H2 | T | T | . | C | T | C | . | . | G | . | C | . | C | . | . | T | G | T | T | G | A | G | G | . | . |
| 39-PSC-O H2 | T | T | . | C | T | C | . | . | G | G | C | . | C | . | . | T | G | . | T | G | A | G | G | . | . |
| 43-CL F11F5 H2 | T | T | T | C | T | C | . | . | G | . | . | . | C | . | . | T | G | . | T | G | A | G | G | . | . |
| 43-Tulahuen cl2 H2 | T | T | T | C | T | C | . | . | G | . | . | . | C | . | . | T | G | . | T | G | A | G | G | . | . |
| Amino acid change | V | Q | E | ||||||||||||||||||||||
| L | R | G | |||||||||||||||||||||||
| TR | 1 | 1 | 1 | 1 | 1 | 1 | 1 | 1 | |||||||||||||||||
| 1 | 2 | 2 | 2 | 3 | 4 | 4 | 5 | 5 | 6 | 6 | 6 | 7 | 7 | 8 | 8 | 9 | 0 | 0 | 0 | 0 | 2 | 2 | 2 | 2 | |
| 9 | 2 | 3 | 7 | 7 | 6 | 8 | 4 | 9 | 1 | 1 | 4 | 3 | 5 | 1 | 7 | 0 | 0 | 1 | 4 | 5 | 0 | 0 | 5 | 7 | |
| Strain/site | 8 | 2 | 1 | 0 | 2 | 6 | 6 | 9 | 4 | 2 | 5 | 2 | 9 | 6 | 3 | 6 | 3 | 8 | 1 | 5 | 8 | 6 | 7 | 1 | 2 |
| 35-M6241 cl6 | G | G | T | A | C | C | G | C | C | T | A | G | G | G | T | C | T | T | G | A | C | A | G | A | T |
| 36-M5631 cl5 | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . |
| 36-CM 17 | A | . | . | . | . | . | . | . | . | . | . | . | A | . | . | . | . | . | . | . | . | . | . | . | . |
| 36-X110/8 | A | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
| 39-PSC-O H1 | A | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
| 39-SO3 cl5 H1 | A | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
| 43-CL F11F5 H1 | A | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
| 43-Tulahuen cl2 H1 | A | A | . | . | . | . | . | . | . | . | . | . | . | . | . | . | . | C | . | . | . | . | . | . | . |
| 30-Esmeraldo cl3 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| 32-TU18 cl2 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| 39-SO3 cl5 H2 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| 39-PSC-O H2 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| 43-CL F11F5 H2 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| 43-Tulahuen cl2 H2 | A | . | C | G | T | A | T | T | T | C | C | A | . | A | C | A | C | C | T | G | A | C | A | C | G |
| Amino acid change | H | G | I | T | K | V | |||||||||||||||||||
| N | S | V | N | N | I |
Numbers correspond to nucleotide sites in the GenBank reference sequences. The suffixes H1 and H2 for isoenzyme types 39 and 43 refer to the arbitrarily defined haplotypes 1 and 2, which are homologous, respectively, to the sequences from isoenzyme types 35–36 and 30–32. The two DHFR-TS haplotypes from 32-CBB and 32-TU18 are identical. The TR sequences from 32-CBB and 32-MSC2 are identical to those from 30-Esmeraldo cl3 and 32-TU18. The sequences from 39-EPP and 39-PSC-O are identical.