Background
Methods
Study area
Sample collection
DNA extraction and PCR amplification of pvcsp and pvmsp-1 genes
Sanger sequencing and analysis
Results
Sequence analysis of pvcsp gene
PRMs | Nucleotide sequence of the repeat allotypes (RATs) |
---|---|
GDRADGQPA (PRM1) | GGAGACAGAGCAGATGGACAGCCAGCA GGAGACAGAGCAGATGGACAGCCAGCA GGTGATAGAGCAGCTGGACAACCAGCA GGTGATAGAGCAGATGGACAGCCAGCA GGCGATAGAGCAGCTGGACAGCCAGCA GGCGATAGAGCAGATGGACAGCCAGCA GGAGATAGAGCAGCTGGACAGCCAGCA GGCGATAGAGCAGATGGACAGCCAGCA |
GDRAAGQPA (PRM2) | GGAGATAGAGCAGCTGGACAGCCAGCA GGCGATAGAGCAGATGGACAGCCAGCA GGAGATAGAGCAGCTGGACAACCAGCA GGTGATAGAGCAGCTGGACAACCAGCA GGAGATAGAGCAGATGGACAACCAGCA GGAGATAGAGCAGCTGGACAGCCAGCA GGAGATAGAGCAGCTGGACAGCCAGCA GGAGATAGAGCAGCTGGACAGCCAGCA |
GNGAGGQAA (PRM3) | GGAGATAGAGCAGCTGGACAGCCAGCA |
GGNAANK (PRM4) | GGAAATGGTGCAGGTGGACAGGCAGCA GGAGGAAATGCGGCAAACAAG |
Pvcsp CRR based genetic population structure
Population | Gene analysed | No. of sequences | Fragment studied | Size of the fragment | No. of Haplotypes | Diversity ± SD | Fu & Li’s D* | Fu & Li’s F* | Tajima’s D* |
---|---|---|---|---|---|---|---|---|---|
(codons)# | Nucleotide (π) Haplotype | ||||||||
Pakistan | pvcsp | 35 | CRR | 364 | 15 | 0.02371 ± 0.00056† 0.084 ± 0.00701† | 1.1787 | 1.12083 | 0.54276 |
Iran | pvcsp | 28 | CRR | 360 | 10 | 0.02001 ± 0.00031† 0.057 ± 0.00478† | 1.0198 | 1.80767 | 0.43556 |
Myanmar | pvcsp | 15 | CRR | 354 | 7 | 0.01781 ± 0.0008† 0.056 ± 0.015 | − 1.20965 | − 1.06781 | − 0.78645 |
India | pvcsp | 25 | CRR | 324 | 17 | 0.0370 ± 0.0064† 0.681 ± 0.076 | 1.05422 | 1.02237 | 0.35674 |
Pakistan | pvmsp-1 | 30 | block 2 | 143 | 10 | 0.00162 ± 0.0000026† 0.012 ± 0.00014† | 1.86276 | 2.13897 | 1.6779 |
Iran | pvmsp-1 | 32 | block 2 | 151 | 10 | 0.00159 ± 0.0000023† 0.012 ± 0.00014† | 1.78902 | 1.90878 | 1.56845 |
India | pvmsp-1 | 25 | block 2 | 155 | 7 | 0.0212 ± 0.0005† 0.989 ± 0.010 | 1.55433 | 1.744009 | 1.66792 |