Skip to main content

Table 2 UPDx (double digest) results obtained for clinical validation specimens confirmed positive for parasites by other diagnostic methods

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

Parasite in sample (specimen #)

Reads assembled

Total reads

% Reads assembled

% Similarity to sequence

GB accession

Plasmodium falciparum (Specimen 1)

7457

15,861

47.01

100.0% similar to Plasmodium falciparum

XR_002966654.1b

4820

15,861

30.39

100.0% similar to Plasmodium falciparum

XR_002273081.2

239

15,861

1.51

99.4% similar to Plasmodium falciparum

XR_002966654.1 b

Plasmodium vivax (Specimen 2)

6584

11,546

57.02

100.0% similar to Plasmodium vivax

XR_003001206.1

2820

11,546

24.42

100.0% similar to Plasmodium vivax

LT635616.1

208

11,546

1.80

100.0% similar to Plasmodium vivax

U93234.1

Plasmodium ovale (Specimen 3)

11,617

15,295

76.00

100.0% similar to Plasmodium ovale wallikeri

MG255222.1

122

15,295

0.798

100.0% similar to Plasmodium ovale wallikeri

KY073344.1

Plasmodium malariae (Specimen 4)

8754

12,200

71.75

100.0% similar to Plasmodium malariae

LT594631.1

Plasmodium knowlesi (Specimen 5)

10,119

11,999

84.33

100.0% similar to Plasmodium knowlesi

MF370109.1

Babesia microti (Specimen 6)

9554

10,770

88.71

100.0% similar to Babesia microti

LC314658.1

Babesia divergens (Specimen 7)

11,847

13,546

87.5

100.0% similar to Babesia sp.

MG944238.1

Babesia duncani (Specimen 8)

11,011

12,591

87.5

100.0% similar to Babesia duncani

HQ289870.1

Babesia divergens-like variant MO1 (Specimen 9)

10,842

12,323

88.0

100.0% similar to Babesia sp.

MG944238.1

Trypanosoma cruzi (clinical–Specimen 10)

1882

18,229

10.32

100.0% similar to Demodex sp.a

MH891494.1

111

18,229

0.609

99.4% similar to Demodex sp.a

MH891494.1

Trypanosoma cruzi (HIV+ clinical–Specimen 11)

1824

14,897

12.24

100.0% similar to Trypanosoma cruzi

AF288661.1

158

14,897

1.06

100.0% similar to Trypanosoma cruzi

CP015675.1

Trypanosoma cruzi (culture–Specimen 12)

8852

15,471

57.2

100.0% similar to Trypanosoma cruzi

CP015675.1

182

15,471

1.18

99.4% similar to Trypanosoma cruzi

CP015675.1

Trypanosoma brucei (Specimen 13)

7928

18,334

43.24

100.0% similar to Trypanosoma brucei brucei

XR_002989632.1

1361

18,334

7.42

99.4% similar to Trypanosoma brucei brucei

XR_002989632.1

Leishmania infantum (Specimen 14)

11,735

17,418

67.373

100.0% similar to Leishmania sp.

GQ332359.1

Leishmania donovani (Specimen 15)

11,781

14,653

80.400

100.0% similar to Leishmania sp.

GQ332359.1

110

14,653

0.751

99.4% similar to Leishmania sp.

GQ332359.1

Brugia malayi (Specimen 16)

1042

13,117

7.944

100.0% similar to Dirofilaria repens

MG780293.1

Loa loa (Specimen 17)

2003

17,439

11.49

100.0% similar to Wuchereria bancrofti

AY843436.1

Mansonella perstans (Sample 18)

180

15,196

1.18

100.0% similar to Filarioidea sp.

KT907503.1

  1. Note: A 100% match to a sequence does not necessarily indicate that this is the species detected. The amplicon sequenced is sufficient for a species diagnosis for only some parasites. Please refer to Fig. 5 for details
  2. aDemodex are mites that commonly inhabit the pores in normal human skin and are considered non-pathogenic, we suspect that this represents potential contamination with skin debris from the venipuncture site. T. cruzi was not detected in this specimen
  3. bExamples where multiple hits to the same accession were observed. These are both shown because the percentage similarity to these accessions is different for these two haplotypes