Table 1 Retrospective viral diagnostics using cell culture, metagenomic sequencing and specific PCRs
Cell culture (CPE) | Metagenomic sequencing (number of reads) | Specific PCR (threshold cycle) | |||||||
|---|---|---|---|---|---|---|---|---|---|
Date | Sample | Original material | Original material | Cell culture supernatant | MRV-3 original material | MRV-3 cell culture supernatant | CV-A original material | HAdV original material | HAdV cell culture supernatant |
25.09.2014 | colon biopsy | na | na | na | undet | na | 37.3 | undet | na |
02.01.2015 | stool | negative | CV-A (9′618) | na | undet | na | 20.1 | 33.0 | na |
29.04.2015 | colon biopsy | na | na | na | undet | na | undet | undet | na |
30.04.2015 | stool | positive | CV-A (555) | HAdV-C (328′173) | undet | undet | 23.6 | 35.3 | 12.0 |
26.05.2015 | stool | positive | CV-A (746′862) HAdV-C (6′131) | HAdV-C (228′718) | undet | undet | 28.0 | 40.5 | 13.8 |
30.06.2015 | stool | positive | na | HAdV-C (439′345) | undet | undet | 24.0 | 37.0 | 14.6 |
14.07.2015 | stool | positive | na | HAdV-C (452′131) | undet | undet | 23.5 | 33.3 | 12.2 |
10.09.2015 | stool | positive | CV-A (195′249) | MRV-3 (6′580) | undet | 21.6 | 20.1 | undet | na |
3.11.2015 | stool | positive | CV-A (414) | MRV-3 (2′742) | 35.8 | 22.2 | 27.3 | undet | na |
25.11.2015 | stool | positive | CV-A (1′549’977) HAdV-C (102) | MRV-3 (850) | 37.3 | 24.0 | 21.2 | undet | undet |
09.02.2016 | stool | na | na | na | undet | na | 14.5 | undet | na |
18.03.2016 | stool | negative | na | na | undet | na | undet | undet | na |
04.05.2016 | stool | negative | na | na | undet | na | 23.5 | 38.24 | na |