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Table 5 Stool samples analysis

From: Hepatitis A virus subgenotyping based on RT-qPCR assays

Stool

Age/Sex

Transaminases IU/mL

Travel

Genotype by sequencing

HAV genome copies/g of stool

Difference of quantification between 5’UTR and subtype RT-qPCR assays (log10)

Difference of quantification between IA and IIA subtype RT-qPCR assays (log10)

5’UTR

IA

IB

IIA

IIB

IIIA

IIIB

0780627147

21-30/M

NC

none

IA

2.30 x107

1.93 x108

-

-

-

-

-

IA : −0.92

-

1280210015

51-60/F

5680

Senegal

IB

1.50 x1010

-

7.19 x1010

-

-

-

-

IB : −0.68

-

1280514230

51-60/F

7191

Benin

IB

6.85 x1010

-

6.37 x1010

-

-

-

-

IB : +0.03

-

1181216151

51-60/F

3623

none

IA

7.75 x1011

5.75 x1011

-

3.85 x106

-

-

-

IA : +0.13 ; IIA : +5.30

−5.17

078014121

51-60/F

NC

Morocco

IB

1.12 x107

-

3.73 x105

-

-

-

-

IB : +1.48

-

  1. Each sample was tested with the reference RT-qPCR assay targeting the 5’UTR of HAV and the 6 genotype-specific RT-qPCR assays. The subtyping results were compared with those obtained with sequencing by the NRC. Concentrations are given in genome copies per gram of stool. NC = Not communicated. The difference of quantification between 5’UTR and subtype RT-qPCR assays is calculated by the formula: (log10 (genomes copies determined by reference RT-qPCR/genomes copies determined by subgenotyping RT-qPCR assays)). The difference of quantification between IA and IIA subtypes by RT-qPCR assays is calculated by the formula: (log10 (genomes copies determined by IA RT-qPCR/genomes copies determined by IIA RT-qPCR assays)).