This was an observational study conducted at Tanjung Leidong Health Centre in Kualuh Leidong District, North Labuhan Batu Regency, from July to December 2018. The district is a coastal area which covers an area of 394 sq km with a population of more than 29,552. Plasmodium vivax is the predominant species in this location. Tanjung Leidong Health Centre offers malaria diagnosis using microscopy and treatment was free for the people. Dihydroartemisinin-piperaquine has been used as drug of choice for P. vivax malaria in Indonesia since 2010. Any person with a fever or a history of fever within 48h who visited the health centre and did not took anti-malarial drugs within the four weeks prior to the study, was selected as a study participant. Individuals who refused to participate were not included. . Individuals who had a P. falciparum infection or where unable to follow-up, were excluded. Antimalaria treatments were provided by Ministry of Health. Dihydroartemisinin–piperaquine (containing 40 mg dihydroartemisinin and 320 mg piperaquine) was ad ministered once daily for 3 days following the National guidelines. Dihydroartemisinin–piperaquine was taken in front of the healthcare staff for 3 consecutive days. In addition, patients with P. vivax malaria were prescribed primaquine (0.25 mg/kg/day for 14 days). All patients were followed up to day 28.
Microscopy for malaria diagnosis
Thick and thin blood smears were prepared on the same slide from samples obtained from each patient with acute febrile illness;. Each slide was stained with a 3% Giemsa solution for 45 min. All sample slides included in this study were examined by a single field microscopist. For positive smears, the numbers of parasites were counted against 200 white blood cells (WBCs) in thick smears or 500 WBCs for low-density infections. Parasite density was calculated assuming 8000 WBCs per μl. The thin smears for the positive samples were examined for species identification. All slides positive at inclusion were sent to Eijkman Institute, Jakarta, for quality control.
Parasite clearance half-life
The parasite clearance half-life (PC1/2) was determined using T1/2 = loge(2)/K derived from the linear segment of the log parasitemia–time curve. The Worldwide Antimalarial Resistance Network (WWARN) Parasite Clearance Estimator (PCE) was not used because the 6-hourly blood sampling required was not possible during this study. However, the PC1/2 at admission was calculated from the first three samples during the log-phase at H0, H24 and H48. We defined the threshold for PC1/2 as 12-18 hours (<12H: normal, 12-18: suspect, > 18: increased).
Molecular analysis
DNA was extracted from blood-spot samples on filter paper according to the spin-column method using the QIAamp DNA Mini Kit, according to the manufacturer’s instructions (Qiagen, Germany) and eluted in a total volume of 150 µl for each sample. The identification of species was confirmed by real-time PCR using species-specific primers [33]. All amplification reactions were carried out in a total volume of 20 µl and the presence of 250 nM of each oligonucleotide primers and 2.0 µl of Light Cycler Fast Start DNA Master SYBR Green 1 reaction mix. Primary amplification reactions were initiated with 5.0 µl of the template genomic DNA, and 1.0 µl of the product of these reactions was used to initiate the secondary amplification reactions.
Genotyping of Pvcsp, and Pvmsp1
Two genes (Pvcsp, Pvmsp1) were used to compare the sequences on admission and on recurrence at D7, D21 and D28. PCR reactions were performed in a total volume of 30 µl containing 1 µM of each primer, Mix Hotstart 5X (Solis Biodyne), 12.5 mM MgCl2 and 2µL of genomic DNA. Before sequencing, all PCR products were purified using ExoSap-it (Thermofisher). Sequencing was carried out by Biofidal-MicroSynth (Lyon, France) using BigDye V3.1 Terminator Cycle Sequencing kit (Thermofischer), purification by BigDye-X- Terminator, on ABI-3730XL sequencer.
Plasmodium vivax circumsporozoite (Pvcsp) gene comprises a central repetitive domain of a 27 bp element repeated a variable number of times [34]. . Two types of repeats have been described, VK210 (type I: GDRADGQPA) and VK247 (type II: ANGAGNQPG). The confirmation of sequences was performed by BLAST and nucleotide sequences were translated into amino acid sequences. BioEdit version 7.2.5 was used to analyze and control the DNA sequences. MUSCLE (MUltiple Sequence Comparison by Log-Expectation) was used for sequence alignment.
PCR amplification of Pvmdr1, PvK12 and PvPM4 genes
PCR reactions were performed in a total volume of 30 µl containing 1 µmol/L of each primer, Mix Hotstart 5X (Solis Biodyne) - 12,5 mmol/L MgCl2, 10X GC Enhancer (Solis Byodine), and 2µL of genomic DNA. Before sequencing, all PCR products were purified using ExoSap-it (Thermofisher). Sequencing was carried out by Biofidal-MicroSynth (Lyon, France) using BigDye V3.1 Terminator Cycle Sequencing kit (Thermofischer), purification by BigDye-X- Terminator, on ABI-3730XL sequencer. Consensus sequences were obtained using Chromas Pro (Technelysium Pty). Primers sequences and PCR program are presented in Table 1.
Table 1: Primers used for the amplification of pvcsp, pvmsp1, pvmdr1, pvk12, and pvpm4
Genes
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Primers
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Sequences 5’ – 3’
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PCR cycling
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Product size (bp)
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Pvcsp
Pvmsp1
Pvmdr1
Pvk12
Pvpm4
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PvCSP-Ofidt PvCSP-Oridt
PvMSP1-icb-F1
PvMSP1 F3-O3R
PvMSP1-NestF2
PvMSP1-N3R
PvMDR1-Fidt
PvMDR1-Ridt
PvMDR1-F1
PvMDR1-R1
PvK12_F1-F
PvK12-c2216R
PvK12_F1-idt
PvK12_R1-idt
PvK12_F2-idt
PvK12_R2-idt
PvK12_F3-idt
PvK12_R3-idt
PV_PM4F1_F
PV_PM4F2_R
PV_PM4F1_R
PV_PM4F2_F
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GACGAGGAAGGAGATGCTAAA CGTACATACAGTTACGTGCAAAC
CCCTACTACTTGATGGTCCTC
GTTGTTACTTGGTCTTCCTCCC
AGCATGATCGCCACTGAGAAG
ATTACTTTGTCGTAGTCCTCGGCGTAGTCC
CTGGAGGCGAACTCGAATAAG
CCCTTCCTTGGAGGAACTAAAC
ATAGTCATGCCCCAGGATTG
ACGTTTGGTCTGGACAAGTAT
CCATACGTAAACGCTGCAAAT
ACAGCAACAGCGACGATAA
ACAGCAACAGCGACGATAA
GTGTTAGGGTGTGCCTAGAAG
CGAATATCGCAACGGAGACTAT
CTACCCAAGCCTTCATCCTATG
TCCATGGAGCTGTTAGACATTAG
CTCATTCGTGTCTGGAGAGAAA
TCAAAAGGAGTACGAAGCATACAA
TGTTCTAATTACAGCACCAACACA
ATGGGTTCTAAATCATCAGTGTCA
GATGCAGCATTAAAAATCTGTACG
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96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2 min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 54°C 20 sec, 72 °C 2 min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 54°C 20 sec, 72 °C 2 min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
96°C 12 min (96°C 20 sec, 52°C 20 sec, 72 °C 2min) 35 cycles, 72° 10 min
95 °C 10 min (95 °C 30s, 62 °C 30s, 72 °C 150s) 40 cycles
95 °C 10 min (95 °C 30s, 62 °C 30s, 72 °C 150s) 30 cycles
|
1087
1827
1705
1211
783
2139
980
728
912
1703
807 - 1086
|
Pvcsp: P. vivax circumsporozoite surface protein, Pvmsp1: P. vivax merozoïte surface protein 1 , Pvmdr1: P. vivax multidrug-resistant ; Pvk12 : P. vivax kelch12 propeller domain , Pvpm4: P. vivax plasmepsine 4.
Ethical clearance
Explanations regarding the study were given to the participants before the samples were collected. The Ethical Committee of the Medical Faculty Universitas Sumatera Utara/Adam Malik General Hospital (No. 588/TGL/KEPK FK USU-RSUP HAM /2018) approved the study. Written informed consent was obtained from each of the study participants, or from the parents or guardians of the children who were included. Material Transfer Agreement between Universitas Sumatera Utara and Lyon University was provided before the samples shipment. The samples shipment was made in agreement with the Nagoya Protocol on Access to Genetic Resources and the Fair and Equitable Sharing of Benefits Arising from their Utilization.