Table 3.

Detection of P. jirovecii in clinical samples using the reference method (PCR) and S2 material. Each sample was analyzed by triplicate.

Sample a	Biological Fluid	Reference Method (PCR) b		S2 c
		Ct	Result	Result
1	Sputum	28	Infected	+
2	Sputum	27.5	Infected	+
3	BAL	36.6	Infected	+
4	Sputum	28.5	Infected	+
5	BAL	38.8	Infected	+
6	BAL	19	Infected	+
7	Sputum	26.8	Infected	+
8	Sputum	30.28	Infected	+
9	Sputum	35.3	Infected	+
10	Sputum	34.9	Infected	+
11	BAL	> 40	Non-Infected	-
12	Sputum	> 40	Non-Infected	-
13	NPA	-	Non- Infected	-
14	NPA	-	Non- Infected	-
15	NPA	-	Non- Infected	-
16	NPA	33.6	Infected	+
17	NPA	37.2	Infected	+
18	NPA	34.9	Infected	+
19	NPA	28.8	Infected	+
20	NPA	-	Non- Infected	-
21	NPA	33.4	Infected	+
22	NPA	-	Non- Infected	-
23	NPA	-	Non- Infected	-
24	NPA	-	Non- Infected	-
25	NPA	-	Non- Infected	+
26	NPA	-	Non- Infected	+
27	NPA	-	Non- Infected	-
28	NPA	34.9	Infected	-
29	NPA	39.4	Infected	-
30	NPA	34.4	Infected	+
31	NPA	34.6	Infected	+
32	NPA	33.4	Infected	+
33	NPA	35.5	Infected	-

^a Samples 1 to 12 were from patients of Hospital Universitari i Politècnic La Fe and samples 13 to 33 were from newborn infant patients of Hospital Universitario Virgen del Rocío. ^b Samples were considered positives (+) when two different aliquots of each patient were positive by specific PCR for P. jirovecii. ^c Samples were considered positives (+) when the fluorescence signal at 585 nm (λ_exc = 555 nm) was higher than the average fluorescence of the negative controls plus three times the standard deviation.