Gene | Haplotypes | Sanger (number %) | NGS (number %) |
|---|
Pfcrt
| CVIET | 7 (26.9%) | 8 (30.8%) |
CVMET | 0 | 1 (3.8%) |
CVMNK (wt) | 19 (73.1%) | 17 (65.4%) |
SEII | ND | 1 (3.8%) |
SETI
| ND | 6 (23%) |
AEIR | ND | 1 (3.8%) |
AQIR | ND | 18 (69.2%) |
Pfmdr1
|
YF
| 2 (7.7%) | 2 (7.7%) |
NF | 15 (57.7%) | 22 (84.6%) |
NY (wt) | 9 (34.6%) | 2 (7.7%) |
KNYS | ND | 1 (3.8%) |
KDFS | ND | 2 (7.7%) |
NDFS | ND | 1 (3.8%) |
KNFN | ND | 1 (3.8%) |
NNYS | ND | 2 (7.7%) |
NNFS (wt) | ND | 19 (73.1%) |
- The haplotypes identified in the Pfcrt and Pfmdr1 genes that were sequenced by Sanger and NGS methods are shown. Wt = wild type. The total number of samples that carried the specific haplotype is indicated and percent is given in parentheses. ND = not detected. The ability to detect certain haplotypes by Sanger is limited because only fragments and not full length gene could be sequenced by the method. The Pfcrt mutant haplotypes CVIET, CVMET and wild type CVMNK are based on protein sequence at codons 72–76 while Pfcrt mutant haplotypes SEII, SETI, AEIR and wild type AQIR are based on protein sequence at codons 220,271,356 and 371. The mutant Pfmdr1 haplotypes YF, NF and wild type NY are based on protein sequence at codons 86 and 184 while mutant Pfmdr1 haplotypes KNYS, KDFS, NDFS, KNFN, NNYS and wild type NNFS are based on protein sequence at codons 504,649,938 and 967
