Table 1 Specific gene primers used for Q-RT PCR. Primers used to specifically amplify var genes, a pseudogene and control genes in Q-RT PCR, in addition to primer sets designed by Salanti et al. [18]. Primers from Salanti et al. that were used in this study (but not shown in table): no. 4–12, 15, 17–23, 25–28, 30, 34–39, 41, 43, 45, 46, 49–55, 91–96, and 97.
Primer set | Forward primer | Reverse primer | Target gene |
|---|---|---|---|
1 new | TAAATTGCTCAATCGCGAAG | CATCGTCATCATCGTCATCA | PFA0005w |
16 | AAAGCCACTAGCGAGGGTAA | TGTTTTTGCCCACTCCTGTA | PFL1955w |
24 | AGGACAACACGGATGAGACA | AGCAGTGTTGTCGCCATTAG | PFC0005w |
32 | ACCTAATGGCGAAAACCAAG | ACACTTGCCTTCATCCACTG | PFD1000c |
44 new | CCTACACTCACCTCCCCCTA | ACACTCACACGCCTCATCAT | PFF1580c |
58 new | ACAACAATTTCGCAAGCAAG | TTCCTCTGCCTCCTCTTCAT | PFI1830c |
66 | CCTAAAAAGGACGCAGAAGG | CCAGCAACACTACCACCAGT | PF08_0107 |
67 | AAGGGAAGATTGGTGGACAG | AGGGGGATCAGTATCACGTC | PFF0020c |
90a | TCAATTTGATAAAGTGGAACAATTC | GCGTTGTTTAAAGCTCCTGA | PF07_0073 |
98 | ATGGTGGCAAACTTGTGAGA | TCCAATTGGTCTCCTTGACA | PF08_0140 |
99 | AGGGAGCATCAGGTGGTAGT | GCTGTGCATGCTTTTTCATT | MAL7P1.50 |
100 | GATCAAAAGAGGCGGAGAAG | TTCCAATTGGGGAATTTTTC | PFI0005w |
101 | CAAGAGACACAACCGGAAGA | CACTTCCAATTGGGGAATTT | PFA0765c |
498/499 | AATCAGAAAAGTGTAATTGCAGGAG | TTTACTATCATCACTGACACGCATT | MAL7P1.212 |
500/501 | GTCCTCTATGTGGAGTGAAAAAGAA | AGTACCGTTATCTGGGTTTATAGGC | MAL8P1.220 |
392/393b | AAACGAAAGCGAAGCAGAAT | CACCTTCACTCCTTGCCATA | PFF0005c |
334/335 | AGCCCAATCGGAAGGTAAGT | TTCATAGCTTCTAGCGCCTT | PFL0030c |
UTR var2csa | CACGACATTAACAATACATGCAGA | CATTGCATTCACAGACATTGG | PFL0030c |
390/391c | AATAATACCAGTGACATTCTGCAAAA | ACACGTAAAAGGTCCACAGGTG | PFL0030c |
535/536c | CCAGCAGGACCAGCAACAGATAGTGGC | CCACTTCTATATGGTATGTACCTATTTTTG | PFL0935c |
496/497c | AATCACTTCCGCAACCCCCACG | CTGAAAAGGTCCACACGAGG | PFD0615c |
MSP1 | ACAACTGAAGATGGGGGTCA | TTTTGGTGGTGATGGTTGTG | PFI1475w |