Table 3 Outcome of target gene sequencing of RT-qPCR FCoV-positive samples
Sample source (number of RT-qPCR positive samples) | Outcome of target gene sequencing | Sequencing result (number of samples; median, and range, relative copy number per reaction) |
|---|---|---|
Cats with FIP | ||
 Tissue (n = 222)a | Success (n = 206) | Non-mutated FCoVs (n = 4; 337, 2.6 × 105 to 5.4) Mixed non-mutated and mutated FCoVs (n = 12; 1.1 × 103, 2.3 × 106 to 33) M1058L (n = 10; 731, 4.4 × 105 to 33) Double-mutated FCoVs (M1058L and S1060A) or mixed mutated FCoVs (n = 2; 2.3 × 106 and 7.6 × 104) Mutated FCoVs (n = 190; 1.3 × 104, 1.2 × 108 to 1.2) M1058L (n = 186; 1.4 × 104, 1.2 × 108 to 1.2) S1060A (n = 4; 1.8 × 104, 9.0 × 106 to 4.2 × 103) |
Failure (n = 16) | Low copy number (n = 4; 6.2, 19 to 4.1) Presence of serotype 2 FCoVs (n = 12; 8.3 × 103, 2.5 × 107 to 41) | |
 Fluid (n = 39)b | Success (n = 34) | Non-mutated FCoVs (n = 4; 190, 1.3 × 103 to 41) Mixed non-mutated and mutated (M1058L) FCoVs (n = 4; 15, 1.1 × 103 to 5.8) Mutated FCoVs (n = 26; 457, 1.1 × 106 to 2.7) M1058L (n = 25; 457, 1.1 × 106 to 2.7) S1060A (n = 1; 3.2 × 103) |
Failure (n = 5) | Low copy number (n = 1; 2.7) Presence of serotype 2 FCoVs (n = 4; 639, 2.0 × 104 to 27) | |
 Faeces (n = 31) | Success (n = 29) | Non-mutated FCoVs (n = 13; 1.1 × 105, 1.2 × 107 to 285) Mixed non-mutated and mutated (M1058L) FCoVs (n = 2; 1.9 × 104 and 91) Mutated (M1058L) FCoVs (n = 14; 63, 1.7 × 104 to 1.2) |
Failure (n = 2) | Presence of serotype 2 FCoVs (n = 2; 178 and 27) | |
Cats without FIP | ||
 Tissue (n = 20) | Success (n = 17) | Non-mutated FCoVs (n = 2; 2.1 × 103 and 5.0) Mixed non-mutated and mutated (M1058L) FCoVs (n = 1; 2.7) Mutated (M1058L) FCoVs (n = 14; 63, 9.4 × 103 to 4.7) |
Failure (n = 3) | Low copy number (n = 3; 5.0, 11 to 4.7) | |
 Fluid (n = 1) | Success (n = 1) | Mutated (M1058L) FCoVs (n = 1; 11) |
 Faeces (n = 7) | Success (n = 6) | Non-mutated FCoVs (n = 6; 330, 1.5 × 104 to 19) |
Failure (n = 1) | Low copy number (n = 1; 2.6) | |