TABLE 2.
In vitro and in silico AcoI (EaeI) digestion of selected EaCoMT gene clones (those having <99% identity with other clone sequences retrieved from the same sample) matched with similar EaCoMT gene sequences from isolated strainsa
| Site | Well ID no. | Clone ID(s) | Observed T-RF (bp) | Predicted T-RF (bp) | Organism with closest BLAST hit (% identity) |
|---|---|---|---|---|---|
| Oceana NAS, VA | MW18 | TD OCEA18 clone 10 | ND | 24 | Mycobacterium tusciae strain JS617 (99) |
| Australia | 039IJ-1 | COM AUS39-1 clones 4 and 7 | 50 | 48 | Mycobacterium gadium strain JS616 (95) |
| Australia | 039IJ-6 | AUS39-6 clone 1 | 50 | 48 | Mycobacterium chubuense NBB4 (92) |
| Oceana NAS, VA | MW25 | OCEA25 clone 2 | 73 | 73 | Nocardioides sp. JS614 (83) |
| Oceana NAS, VA | MW25 | OCEA25 clone 4 | 104 | 103 | Nocardioides sp. JS614 (83) |
| Oceana NAS, VA | MW18 | OCEA18 clones 1 and 2 | 104 | 103 | Nocardioides sp. JS614 (87) |
| Oceana NAS, VA | MW25 | OCEA25 clone 1 | 313 | 312 | Nocardioides sp. JS614 (85) |
| Oceana NAS, VA | MW18 | OCEA18 clone 3 | 314 | 318 | Nocardioides sp. JS614 (76) |
| Kotzebue, AK | 10-01 | KOTZ01 clone 1 | 314 | 312 | Mycobacterium sp. JS624 (92) |
| Australia | 039IJ-1 | COM AUS39-1 clones 1 and 3 | 314 | 312 | Mycobacterium smegmatis JS623 (94) |
| Australia | 039IJ-1 | AUS39-1 clone 4, AUS39-6 clone 3 | 314 | 312 | Mycobacterium sp. JS624 (93–94) |
| Fairbanks, AK | MW-4 M | FAIR4 clone 2 | 354 | 356 | Nocardioides sp. JS614 (98–99) |
| Fairbanks, AK | MW-13 M | FAIR13 clone 3 | |||
| Carver, MA | RB46D | TD CARV46 clones 3 and 10 | 364 | 363 | Mycobacterium rhodesiae strain JS60 (99–100) |
| RB63I | TD CARV 63 clones 1 and 10 | ||||
| Oceana NAS, VA | MW18 | OCEA18 clone 2 | |||
| MW25 | OCEA25 clone 8 | ||||
| Soldotna, AK | MW6 | SOLD6 clones 2 and 8 | |||
| Australia | 039IJ-1 | COM AUS39-1 clone 2 | 448 | 453b | Mycobacterium chubuense NBB4 (99) |
| Kotzebue, AK | 10-01 | KOTZ01 clone 3 | |||
| 10-03 | KOTZ03 clone 2 | ||||
| Soldotna, AK | MW6 | SOLD6 clones 1, 3, and 6 | 440 | 447b | Haliea sp. ETY-M (76–79) |
| MW40 | SOLD40 clone 1 |
a
The maximum T-RF size is 453 bp, as PCR was performed with F131/R562 primers. ND, not determined.
b
No predicted AcoI (EaeI) restriction site.