Table 1.
MAMA real-time PCR assay sequences and targets for genotyping C. gattii
| Genotype | Assay Name | Gene (SNP position) | Base call match/mismatch | Universal Primer sequence 5′ -- > 3′ | Match MAMA Primer sequence 5′ -- > 3′ | Mismatch MAMA Primer sequence 5′ -- > 3′ |
|---|---|---|---|---|---|---|
| VGI |
VGI-MPD471 |
MPD1 (471) |
G/A |
AGACTGTCCCAATGTCAAGCTTTC |
GCCTTGTATGTGGTAACACCAGTG |
GWGCCTTGTATGTGGTAACACCAGTA |
| VGII |
VGII-MPD495 |
MPD1 (495) |
T/A |
AGACTGTCCCAATGTCAAGCTTTC |
ATTAACCTTAGTGTTGGAGACCTTGACT |
AACCTTAGTGTTGGAGACCTTGACA |
| VGIIa |
VGIIa-45211 |
hypothetical protein |
A/C |
CCCAGCAACCTTGATCTGGA |
AGCTGCTCTAAGAGACACATCATCA |
AGCTGCTCTAAGAGACACATCATCC |
| VGIIb |
VGIIb-502129 |
not annotated |
G/A |
AATCGCTCGTCCTCATATGACA |
GTAGGCGGTGGGATAAGGTG |
GGTAGGCGGTGGGATAAGGTA |
| VGIIc |
VGIIc-257655 |
non-coding region |
C/T |
CGTTAATTTGGTTGTTTGACAACCT |
AGCAACTCACGCAGAAACAGAC |
GAGCAACTCACGCAGAAACAGAT |
| VGIII |
VGIII-MPD198 |
MPD1 (198) |
T/A |
TGACATTGGGACAGTCTGCAAT |
ACTGCTGCTTCTCCCGTTGT |
CTGCTGCTTCTCCCGTTGA |
| VGIV | VGIV-MPD423 | MPD1 (423) | A/C | ACCCAGTCATTAACCTTAGTGTTGGA | CTCGTTCGTCAAYCACGTTAGA | TCGTTCGTCAAYCACGTTAGC |