Review of 16S and ITS Direct Sequencing Results for Clinical Specimens Submitted to a Reference Laboratory

Table 1

Amplification and identification rates for direct 16S testing.

Specimen type	Number of positive specimens	Number of negative specimens	Percent positive	Total number of specimens
Fresh tissue
Microscopy positive	9	5	64.3%	14
Microscopy negative	18	88	17.0%	106
No microscopy result	6	22	21.4%	28
Total	33	115	22.3%	148
FFPE tissue
Microscopy positive	3	0	100.0%	3
Microscopy negative	0	2	0.0%	2
No microscopy result	0	2	0.0%	2
Total	3	4	42.9%	7
Sterile fluids
Microscopy positive	2	2	50.0%	4
Microscopy negative	17	50	25.4%	67
No microscopy result	9	42	17.6%	51
Total	28	94	23.0%	122
All specimens types
Microscopy positive	14	7	66.7%	21
Microscopy negative	35	140	20.0%	175
No microscopy result	15	66	19.8%	81
Total	64	213	23.1%	277

Note: not all specimens had microscopy results available.
Formalin fixed paraffin embedded.