Identification of single-nucleotide polymorphisms in the mitochondrial genome and kelch 13 gene of Plasmodium falciparum in different geographical populations
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Identification of single-nucleotide polymorphisms in the mitochondrial genome and kelch 13 gene of Plasmodium falciparum in different geographical populations. / Nydahl, Tine Kliim; Ahorhorlu, Samuel Yao; Ndiaye, Magatte; Das, Manoj Kumar; Hansson, Helle; Bravo, Marina Crespo; Wang, Christian William; Lusingu, John; Theisen, Michael; Singh, Susheel Kumar; Singh, Subhash; Campino, Susana; Lund, Ole; Roper, Cally; Alifrangis, Michael.
In: American Journal of Tropical Medicine and Hygiene, Vol. 105, No. 4, 2021, p. 1085-1092.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - Identification of single-nucleotide polymorphisms in the mitochondrial genome and kelch 13 gene of Plasmodium falciparum in different geographical populations
AU - Nydahl, Tine Kliim
AU - Ahorhorlu, Samuel Yao
AU - Ndiaye, Magatte
AU - Das, Manoj Kumar
AU - Hansson, Helle
AU - Bravo, Marina Crespo
AU - Wang, Christian William
AU - Lusingu, John
AU - Theisen, Michael
AU - Singh, Susheel Kumar
AU - Singh, Subhash
AU - Campino, Susana
AU - Lund, Ole
AU - Roper, Cally
AU - Alifrangis, Michael
N1 - Publisher Copyright: © 2021 by The American Society of Tropical Medicine and Hygiene
PY - 2021
Y1 - 2021
N2 - The emergence of artemisinin-resistant Plasmodium falciparum parasites in Southeast Asia threatens malaria control and elimination. The interconnectedness of parasite populations may be essential to monitor the spread of resistance. Combining a published barcoding system of geographically restricted single-nucleotide polymorphisms (SNPs), mainly mitochondria of P. falciparum with SNPs in the K13 artemisinin resistance marker, could elucidate the parasite population structure and provide insight regarding the spread of drug resistance. We explored the diversity of mitochondrial SNPs (bp position 611-2825) and identified K13 SNPs from malaria patients in the districts of India (Ranchi), Tanzania (Korogwe), and Senegal (Podor, Richard Toll, Kaolack, and Ndoffane). DNA was amplified using a nested PCR and Sanger-sequenced. Overall, 199 K13 sequences (India: N 5 92; Tanzania: N 5 48; Senegal: N 5 59) and 237 mitochondrial sequences (India: N 5 93; Tanzania: N 5 48; Senegal: N 5 96) were generated. SNPs were identified by comparisons with reference genomes. We detected previously reported geographically restricted mitochondrial SNPs (T2175C and G1367A) as markers for parasites originating from the Indian subcontinent and several geographically unrestricted mitochondrial SNPs. Combining haplotypes with published P. falciparum mitochondrial genome data suggested possible regional differences within India. All three countries had G1692A, but Tanzanian and Senegalese SNPs were well-differentiated. Some mitochondrial SNPs are reported here for the first time. Four nonsynonymous K13 SNPs were detected: K189T (India, Tanzania, Senegal); A175T (Tanzania); and A174V and R255K (Senegal). This study supports the use of mitochondrial SNPs to determine the origin of the parasite and suggests that the P. falciparum populations studied were susceptible to artemisinin during sampling because all K13 SNPs observed were outside the propeller domain for artemisinin resistance.
AB - The emergence of artemisinin-resistant Plasmodium falciparum parasites in Southeast Asia threatens malaria control and elimination. The interconnectedness of parasite populations may be essential to monitor the spread of resistance. Combining a published barcoding system of geographically restricted single-nucleotide polymorphisms (SNPs), mainly mitochondria of P. falciparum with SNPs in the K13 artemisinin resistance marker, could elucidate the parasite population structure and provide insight regarding the spread of drug resistance. We explored the diversity of mitochondrial SNPs (bp position 611-2825) and identified K13 SNPs from malaria patients in the districts of India (Ranchi), Tanzania (Korogwe), and Senegal (Podor, Richard Toll, Kaolack, and Ndoffane). DNA was amplified using a nested PCR and Sanger-sequenced. Overall, 199 K13 sequences (India: N 5 92; Tanzania: N 5 48; Senegal: N 5 59) and 237 mitochondrial sequences (India: N 5 93; Tanzania: N 5 48; Senegal: N 5 96) were generated. SNPs were identified by comparisons with reference genomes. We detected previously reported geographically restricted mitochondrial SNPs (T2175C and G1367A) as markers for parasites originating from the Indian subcontinent and several geographically unrestricted mitochondrial SNPs. Combining haplotypes with published P. falciparum mitochondrial genome data suggested possible regional differences within India. All three countries had G1692A, but Tanzanian and Senegalese SNPs were well-differentiated. Some mitochondrial SNPs are reported here for the first time. Four nonsynonymous K13 SNPs were detected: K189T (India, Tanzania, Senegal); A175T (Tanzania); and A174V and R255K (Senegal). This study supports the use of mitochondrial SNPs to determine the origin of the parasite and suggests that the P. falciparum populations studied were susceptible to artemisinin during sampling because all K13 SNPs observed were outside the propeller domain for artemisinin resistance.
U2 - 10.4269/ajtmh.21-0320
DO - 10.4269/ajtmh.21-0320
M3 - Journal article
C2 - 34270452
AN - SCOPUS:85117075220
VL - 105
SP - 1085
EP - 1092
JO - Journal. National Malaria Society
JF - Journal. National Malaria Society
SN - 0002-9637
IS - 4
ER -
ID: 283138638