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Table 3 Positive detection of multiple parasites in a single specimen using UPDx

From: Sensitive universal detection of blood parasites by selective pathogen-DNA enrichment and deep amplicon sequencing

Sample name Spiked analytes % Similarity to reference sequences Parasite abbreviation: accession # (% reads assembleda) Total % reads assembled
Mix 1 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (2.3%), XR_002273081.2 (2.1%) 4.4
P. vivax 100.0% similar to Plasmodium vivax Pv: LT635616.1 (15.8%), XR_003001206.1 (43.9%) 59.7
Mix 2 P. ovale 100.0% similar to Plasmodium ovale wallikeri Po: MG255222.1 (34.1%), KY073344.1 (1.5%) 35.6
P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (13.9%), XR_002273081.2 (9.3%) 23.2
Mix 3 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (23.1%), XR_002273081.2 (15.1%) 38.2
P. malariae 100%% similar to Plasmodium malariae Pm: LT594631.1 (15.9%) 15.9
Mix 4 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (5.6%), XR_002273081.2 (4.5%) 10.1
P. knowlesi 100.0% similar to Plasmodium knowlesi Pk: MF370109.1 (55.0) 55.0
Mix 5 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (1.5%), XR_002273081.2 (1.3%) 2.8
P. vivax 100.0% similar to Plasmodium vivax Pv: LT635616.1 (10.0%), XR_003001206.1 (27.2%), U93234.1 (0.6%) 37.8
P. ovale 100.0% similar to Plasmodium ovale wallikeri Po: MG255222.1 (5.4%) 5.4
P. malariae 100.0% similar to Plasmodium malariae Pm: LT594631.1 (1.6%) 1.6
P. knowlesi 100.0% similar to Plasmodium knowlesi Pk: MF370109.1 (16.8) 16.8
Mix 6 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (22.4%), XR_002273081.2 (12.5%) 34.9
T. cruzi 100.0% similar to Trypanosoma cruzi Tc: CP015675.1 (20.5%), AF288661.1 (1.2%) 21.7
Mix 7 P. vivax 100.0% similar to Plasmodium vivax Pv: LT635616.1 (17.4%), XR_003001206.1 (43.8%) 61.2
T. cruzi 100.0% similar to Trypanosoma cruzi Tc: CP015675.1 (2.5%) 2.5
Mix 8 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (27.0%), XR_002273081.2 (15.0%) 42.0
T. brucei 100.0% similar to Trypanosoma brucei brucei Tb: XR_002989632.1 (10.3%) 10.3
Mix 9 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (27.0%), XR_002273081.2 (15.0%) 52.2
L. loa 100.0% similar to Loa loa and Wuchereria bancroftib Ll: AY843436.1 (0.91%) 0.91
Mix 10 P. falciparum 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (34.6%), XR_002273081.2 (18.4%) 49.2
B. malayi 100.0% similar to filarial nematode sequencesc Bm: MG780293.1 (0.55%) 0.55
Natural mixed infection N/A 100.0% similar to Plasmodium falciparum Pf: XR_002966654.1 (0.80%), XR_002273081.2 (0.80%) 1.60
100.0% similar to Plasmodium malariae Pm: LT594631.1 (2.2%) 2.2
  1. aPercentage of reads assembled to produce a haplotype that obtained a 100% similarity BLASTN hit to the sequence associated with the accession numbers provided
  2. bThe sequence generated cannot distinguish between Loa loa and Wuchereria bancrofti
  3. cThe sequence generated from this amplicon cannot differentiate between several filarial nematodes. For example, our reference database included a sequence from Dirofilaria repens though it is important to note that the nucleotide sequence is identical to Brugia malayi at the 18S rDNA region captured by UPDx