Gastrointestinal symptoms and fecal shedding of SARS-CoV-2 RNA suggest prolonged gastrointestinal infection natarajan2022gastrointestinal
Fecal samples were collected from 113 participants “in a randomized controlled study of Peg-interferon lambda-1a versus a placebo control for the treatment of mild to moderate COVID-19.” A total of 7,563 measurements were taken for 679 samples using seven distinct assays; assays were typically run in duplicates.
Samples were initially collected using OMNIGene GUT collection tubes (OG) but subsequently replaced with Zymo DNA/RNA shield fecal collection tubes (ZY) because of better performance. There are consequently 14 analytes following the naming convention {target gene E, RdRP, N1, or N2}-{genomic RNA (gRNA) or subgenomic RNA (sgRNA)}-{quantification method RT-qPCR or ddPCR}-{collection tube OG or ZY}.
The reference event for temporal offsets in days is the day of enrollment.
Analytes
E-gRNA-RT-qPCR-OG
Concentration of genomic RNA of the E gene quantified using RT-qPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: E
Participants: 108
Negative samples: 493
Positive samples (not quantifiable): 0
Quantifiable samples: 163
Limit of quantification: unknown
Limit of detection: 1000
E-gRNA-RT-qPCR-ZY
Concentration of genomic RNA of the E gene quantified using RT-qPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: E
Participants: 104
Negative samples: 488
Positive samples (not quantifiable): 0
Quantifiable samples: 214
Limit of quantification: unknown
Limit of detection: 1000
RdRP-gRNA-RT-qPCR-OG
Concentration of genomic RNA of the RdRp gene quantified using RT-qPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: RdRP
Participants: 108
Negative samples: 553
Positive samples (not quantifiable): 0
Quantifiable samples: 103
Limit of quantification: unknown
Limit of detection: 1000
RdRP-gRNA-RT-qPCR-ZY
Concentration of genomic RNA of the RdRp gene quantified using RT-qPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: RdRP
Participants: 104
Negative samples: 534
Positive samples (not quantifiable): 0
Quantifiable samples: 168
Limit of quantification: unknown
Limit of detection: 1000
N1-gRNA-RT-qPCR-OG
Concentration of genomic RNA of the N1 gene quantified using RT-qPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 108
Negative samples: 376
Positive samples (not quantifiable): 0
Quantifiable samples: 280
Limit of quantification: unknown
Limit of detection: 1000
N1-gRNA-RT-qPCR-ZY
Concentration of genomic RNA of the N1 gene quantified using RT-qPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 104
Negative samples: 404
Positive samples (not quantifiable): 0
Quantifiable samples: 298
Limit of quantification: unknown
Limit of detection: 1000
N2-gRNA-RT-qPCR-OG
Concentration of genomic RNA of the N2 gene quantified using RT-qPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N2
Participants: 108
Negative samples: 429
Positive samples (not quantifiable): 0
Quantifiable samples: 227
Limit of quantification: unknown
Limit of detection: 1000
N2-gRNA-RT-qPCR-ZY
Concentration of genomic RNA of the N2 gene quantified using RT-qPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N2
Participants: 104
Negative samples: 459
Positive samples (not quantifiable): 0
Quantifiable samples: 243
Limit of quantification: unknown
Limit of detection: 1000
N1-gRNA-ddPCR-OG
Concentration of genomic RNA of the N1 gene quantified using ddPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 108
Negative samples: 185
Positive samples (not quantifiable): 0
Quantifiable samples: 154
Limit of quantification: unknown
Limit of detection: 1000
N1-gRNA-ddPCR-ZY
Concentration of genomic RNA of the N1 gene quantified using ddPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 104
Negative samples: 154
Positive samples (not quantifiable): 0
Quantifiable samples: 197
Limit of quantification: unknown
Limit of detection: 1000
E-gRNA-ddPCR-OG
Concentration of genomic RNA of the E gene quantified using ddPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: E
Participants: 92
Negative samples: 103
Positive samples (not quantifiable): 0
Quantifiable samples: 58
Limit of quantification: unknown
Limit of detection: 1000
E-gRNA-ddPCR-ZY
Concentration of genomic RNA of the E gene quantified using ddPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: E
Participants: 75
Negative samples: 41
Positive samples (not quantifiable): 0
Quantifiable samples: 79
Limit of quantification: unknown
Limit of detection: 1000
N1-sgRNA-RT-qPCR-OG
Concentration of sub-genomic RNA of the N1 gene quantified using RT-qPCR for a sample collected using the OMNIGene GUT collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 108
Negative samples: 569
Positive samples (not quantifiable): 0
Quantifiable samples: 49
Limit of quantification: unknown
Limit of detection: 1000
N1-sgRNA-RT-qPCR-ZY
Concentration of sub-genomic RNA of the N1 gene quantified using RT-qPCR for a sample collected using the Zymo DNA/RNA shield fecal collection tube.
Biomarker: SARS-CoV-2
Specimen:
stool
Units: gc/mL
Gene target: N1
Participants: 101
Negative samples: 405
Positive samples (not quantifiable): 0
Quantifiable samples: 137
Limit of quantification: unknown
Limit of detection: 1000