Background
Methods
Study area and population
Microscopic diagnosis
DNA extraction
18S rRNA species-specific nested PCR, standard PCR
Restriction Fragment Length Polymorphism (RFLP) and dHPLC
Cytochrome b SNP identification
Reference genomic DNA
Statistical analysis
Results
RFLP-dHPLC Plasmodium species diagnosis validation
RFLP-dHPLC | Standard PCR | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
neg
|
F
|
V
|
O
|
FM
|
FO
|
FV
|
VM
|
FVM
|
FVO
|
FVMO
|
Total
| |
neg | 21 | 4 | 4 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 29 |
F | 8 | 40 | 0 | 0 | 0 | 0 | 6 | 0 | 1 | 1 | 0 | 56 |
V | 1 | 0 | 6 | 0 | 0 | 0 | 2 | 1 | 0 | 0 | 0 | 10 |
M | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 4 |
O | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
FM | 0 | 1 | 0 | 0 | 4 | 0 | 0 | 0 | 2 | 0 | 0 | 7 |
FO | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
FV | 0 | 3 | 2 | 0 | 0 | 0 | 10 | 0 | 0 | 0 | 2 | 17 |
VM | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 1 |
VO | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 |
FVM | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 0 | 1 | 4 |
FVO | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 0 | 2 |
Total | 32 | 48 | 12 | 2 | 4 | 2 | 18 | 3 | 7 | 3 | 3 | 134 |
RFLP-dHPLC | sequence analysis of SNP from cytochrome b gene | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
neg
|
F
|
V
|
M
|
FM
|
FO
|
FV
|
VM
|
VO
|
FVM
|
FVO
|
Total
| |
neg | 21 | 3 | 2 | 0 | 0 | 0 | 3 | 0 | 0 | 0 | 0 | 29 |
F | 5 | 50 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 56 |
V | 0 | 0 | 8 | 0 | 0 | 0 | 2 | 0 | 0 | 0 | 0 | 10 |
M | 0 | 0 | 0 | 3 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 4 |
O | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 |
FM | 0 | 1 | 0 | 1 | 4 | 0 | 0 | 0 | 0 | 1 | 0 | 7 |
FO | 1 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 |
FV | 0 | 2 | 2 | 0 | 0 | 0 | 12 | 0 | 0 | 1 | 0 | 17 |
VM | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | 1 |
VO | 0 | 0 | 1 | 0 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 2 |
FVM | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 4 | 0 | 4 |
FVO | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 2 | 2 |
Total | 27 | 56 | 13 | 4 | 5 | 1 | 17 | 2 | 1 | 6 | 2 | 134 |
Comparison of RFLP-dHPLC and microscopy results
RFLP-dHPLC | Microscopy | ||||
---|---|---|---|---|---|
neg
|
F
|
V
|
FV
|
Total
| |
neg | 388 | 32 | 5 | 3 | 428 |
F | 331 | 241 | 6 | 13 | 591 |
V | 50 | 5 | 8 | 4 | 67 |
M | 35 | 2 | 1 | 1 | 39 |
O | 3 | 1 | 0 | 0 | 4 |
FM | 59 | 24 | 3 | 2 | 88 |
FO | 2 | 3 | 0 | 1 | 6 |
FV | 49 | 35 | 10 | 7 | 101 |
VM | 5 | 2 | 0 | 1 | 8 |
VO | 4 | 0 | 0 | 0 | 4 |
FVM | 11 | 4 | 1 | 0 | 16 |
FVO | 2 | 1 | 0 | 0 | 3 |
FVMO | 1 | 0 | 0 | 0 | 1 |
Total | 940 | 350 | 34 | 32 | 1356 |
Microscopy | |||||||
---|---|---|---|---|---|---|---|
P. spp
|
Pf
|
Pv
| |||||
Village | N | % | IC95% | % | IC95% | % | IC95% |
Yasom | 204 | 38,7% | (32,0-45,8) | 36,8% | (30,1-43,8) | 8,3% | (4,9-13,0) |
Roy | 205 | 37,1% | (30,4-44,1) | 33,2% | (26,8-40,1) | 7,8% | (4,5-12,4) |
Paor | 209 | 25,4% | (19,6-31,8) | 23,0% | (17,4-29,3) | 3,8% | (1,7-7,4) |
Chet | 202 | 27,7% | (21,7-34,4) | 26,2% | (20,3-32,9) | 3,0% | (1,1-6,4) |
Tung | 141 | 20,6% | (14,2-28,2) | 14,2% | (8,9-21,1) | 9,2% | (5,0-15,3) |
Touch | 143 | 35,0% | (27,2-43,4) | 34,3% | (26,5-42,7) | 1,4% | (0,2-5,0) |
Laing Av | 118 | 28,8% | (20,8-37,9) | 26,3% | (18,6-35,2) | 2,5% | (0,5-7,3) |
Pahoy | 134 | 29,1% | (21,6-37,6) | 28,4% | (20,9-36,8) | 0,7% | (0,0-4,1) |
RFLP-dHPLC | ||||||||||
---|---|---|---|---|---|---|---|---|---|---|
P. spp. |
Pf
|
Pv
|
Pm
|
Po
| ||||||
Village | % | IC95% | % | IC95% | % | IC95% | % | IC95% | % | IC95% |
Yasom | 71,6% | (64,8-77,6) | 66,7% | (59,7-73,1) | 14,2% | (9,7-19,8) | 10,8% | (6,9-15,9) | 2,0% | (0,5-4,9) |
Roy | 65,4% | (58,4-71,9) | 56,1% | (49,0-63,0) | 11,2% | (7,2-16,4) | 9,8% | (6,1-14,7) | 2,0% | (0,5-4,9) |
Paor | 68,9% | (62,1-75,1) | 60,3% | (53,3-67,0) | 12,4% | (8,3-17,7) | 15,3% | (10,7-20,9) | 0,0% | (0,0-1,7) |
Chet | 66,3% | (59,4-72,8) | 58,9% | (51,8-65,8) | 11,9% | (7,8-17,2) | 5,9% | (3,1-10,1) | 0,0% | (0,0-1,8) |
Tung | 53,2% | (44,6-61,6) | 39,0% | (30,9-47,6) | 16,3% | (10,6-23,5) | 12,1% | (7,2-18,6) | 1,4% | (0,2-5,0) |
Touch | 69,9% | (61,7-77,3) | 61,5% | (53,0-69,5) | 16,8% | (11,1-23,9) | 13,3% | (8,2-20,0) | 1,4% | (0,2-5,0) |
Laing Av | 76,3% | (67,6-83,6) | 67,8% | (58,6-76,1) | 12,7% | (7,3-20,1) | 11,9% | (6,6-19,1) | 0,0% | (0,0-3,1) |
Pahoy | 78,4% | (70,4-85,0) | 64,9% | (56,2-73,0) | 26,9% | (19,6-35,2) | 11,9% | (7,0-18,7) | 4,5% | (1,7-9,5) |
Prevalence of sub-microscopic P. falciparum infection
Characterization of mixed infection
Sex and ethnic groups
P. falciparum infections
|
P. vivax infections
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Prevalence | Prevalence | ||||||||||||
N | positive | rate | OR | IC95% | p-value | positive | rate | OR | IC95% | p-value | |||
P. falciparum infection
| |||||||||||||
Not detected* | 540 | 77 | 14,3% | 1,00 | |||||||||
Detected* | 779 | 114 | 14,6% | 0,92 | 0,66 | 1,30 | 0,647 | ||||||
P. vivax infection
| |||||||||||||
Not detected* | 1128 | 665 | 59,0% | 1,00 | |||||||||
Detected* | 191 | 114 | 59,7% | 0,90 | 0,64 | 1,26 | 0,535 | ||||||
P. malariae infection
| |||||||||||||
Not detected* | 1173 | 680 | 58,0% | 1,00 | 168 | 14,3% | 1,00 | ||||||
Detected* | 146 | 99 | 67,8% | 1,34 | 0,91 | 1,99 | 0,138 | 23 | 15,8% | 1,17 | 0,71 | 1,90 | 0,540 |
P. ovale infection
| |||||||||||||
Not detected* | 1301 | 769 | 59,1% | 1,00 | 183 | 14,1% | 1,00 | ||||||
Detected* | 18 | 10 | 55,6% | 0,63 | 0,23 | 1,73 | 0,367 | 8 | 44,4% | 4,35 | 1,64 | 11,49 | 0,003 |
Sex | |||||||||||||
Female | 723 | 400 | 55,3% | 1,00 | 92 | 12,7% | 1,00 | ||||||
Male | 596 | 379 | 63,6% | 1,54 | 1,21 | 1,96 | <0,001 | 99 | 16,6% | 1,35 | 0,98 | 1,86 | 0,064 |
Age groups (years) | |||||||||||||
< 1 | 50 | 14 | 28,0% | 1,00 | 7 | 14,0% | 1,00 | ||||||
1 | 41 | 14 | 34,1% | 1,69 | 0,67 | 4,21 | 0,264 | 14 | 34,1% | 3,77 | 1,33 | 10,71 | 0,013 |
2 | 66 | 35 | 53,0% | 3,35 | 1,51 | 7,46 | 0,003 | 8 | 12,1% | 0,89 | 0,30 | 2,68 | 0,838 |
3 | 58 | 38 | 65,5% | 6,06 | 2,61 | 14,08 | <0,001 | 12 | 20,7% | 1,71 | 0,60 | 4,85 | 0,313 |
4 | 51 | 37 | 72,5% | 7,99 | 3,29 | 19,43 | <0,001 | 7 | 13,7% | 1,02 | 0,32 | 3,20 | 0,978 |
5-9 | 225 | 173 | 76,9% | 10,85 | 5,33 | 22,10 | <0,001 | 41 | 18,2% | 1,45 | 0,59 | 3,57 | 0,418 |
10-14 | 134 | 106 | 79,1% | 12,78 | 5,93 | 27,55 | <0,001 | 27 | 20,1% | 1,66 | 0,65 | 4,27 | 0,290 |
15-19 | 95 | 61 | 64,2% | 6,21 | 2,87 | 13,43 | <0,001 | 9 | 9,5% | 0,69 | 0,23 | 2,02 | 0,494 |
20-39 | 401 | 212 | 52,9% | 3,41 | 1,75 | 6,62 | <0,001 | 46 | 11,5% | 0,86 | 0,36 | 2,07 | 0,742 |
40-60 | 146 | 66 | 45,2% | 2,43 | 1,19 | 4,96 | 0,014 | 15 | 10,3% | 0,72 | 0,27 | 1,91 | 0,513 |
>60 | 52 | 23 | 44,2% | 2,48 | 1,06 | 5,79 | 0,035 | 5 | 9,6% | 0,64 | 0,19 | 2,23 | 0,488 |
Ethnic groups | |||||||||||||
Jaray | 269 | 133 | 49,4% | 1,00 | 44 | 16,4% | 1,38 | 0,92 | 2,06 | 0,115 | |||
Tampoun | 801 | 482 | 60,2% | 1,86 | 1,19 | 2,90 | 0,007 | 96 | 12,0% | 1,00 | |||
Brao | 249 | 164 | 65,9% | 2,60 | 1,52 | 4,47 | 0,001 | 51 | 20,5% | 2,03 | 1,38 | 2,99 | <0,001 |