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Table 2 Assessment of Cryptosporidium preparation from 17 stool samples containing C. hominis or C. parvum oocysts

From: Generation of whole genome sequences of new Cryptosporidium hominis and Cryptosporidium parvum isolates directly from stool samples

   Initial suspension prior to processing by IMS DNA extracted from IMS purified oocysts
Sample Species and gp60 subtype qPCR 18S rRNA CT Number of oocysts counted Visual condition of oocysts qPCR 18S rRNA CT Calculated genome copies Mass of DNA (ng) >1 ng DNA available for library preparation (isolate reference number)
1 C. hominis IaA14R3 ND 1.9×107 Good 17.7 5.53×107 77 Yes (UKH4)
2 C. hominis IbA10G2 23.5 1.6×107 Good 20.0 1.24×107 49.55 Yes
(UKH5)
3 C. hominis IdA18 29.3 2.1×105 Good 25.7 1.64×105 Below threshold No
4 C. parvum IIaA15G1R1 31.6 7.5×104 Good 25.9 1.49×105 0.00 No
5 C. parvum IIaA15G1R2 31.1 5.0×104 Good 25.1 2.36×105 0.00 No
6 C. parvum IIaA15G2R1 28.1 3.6×105 OK - a few empty oocysts, didn't stain well 28.6 2.66×104 0.00 No
7 C. parvum IIaA18G2R1 29.1 1.5×106 Good 22.2 2.99×106 5.45 Yes
(UKP3)
8 C. parvum IIaA15G2R1 25.5 2.8×106 Good 20.1 5.99×106 18.65 Yes
(UKP4)
9 C. parvum IIaA15G2R1 27.5 9.1×105 Good 23.2 1.52×106 2.68 Yes
(UKP5)
10 C. parvum IIaA15G2R1 27.1 2.7×106 Good 23.4 1.32×106 4.40 Yes
(UKP6)
11 C. parvum IIaA17G1R1 23.8 9.0×106 Good 20.3 1.01×107 28.65 Yes
(UKP7)
12 C. parvum IIaA19G2R1 30.4 1.1×106 Good 24.4 3.74×105 0.8 No
13 C. parvum IIaA19G2R1 29.2 1.1×106 Good 28.7 2.53×104 0.00 No
14 C. parvum IIaA19G2R1 30.6 5.2×105 OK 31.8 3.58×103 0.00 No
15 C. parvum IIaA19G2R1 34.0 3.9×104 OK - a few empty oocysts No amplicon detected 0 ND No
16 C. parvum IIdA22G1 28.4 2.3×106 Good 21.9 3.62×106 6.55 Yes
(UKP8)
17 C. parvum IIdA24G1 30.9 1.2×106 Good 23.9 1.01×106 2.88 Yesa
  1. aA technical problem resulted in no data being produced for this sample