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Table 6 Serum samples analysis

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

Serum

Age/Sex

Transaminases IU/mL

Travel

Genotype by sequencing

HAV genome copies/μl of serum

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

Difference of quantification between IA and IB subtype assays (log10)

5’UTR

IA

IB

IIA

IIB

IIIA

IIIB

1310074855

61-70/F

3935

Ethiopia

IB

1.50 x108

-

2.87 x108

-

-

-

-

IB : –0.28

-

1310016965

11-20/M

400

NC

IB

3.13 x105

-

4.18 x103

-

-

-

-

IB : +1.87

-

1311012387

1-10/F

NC

NC

IA

6.37 x104

9.26 x104

-

-

-

-

-

IA : −0.16

-

1311018436

1-10/M

NC

NC

IA

2.86 x104

3.60 x104

-

-

-

-

-

IA : −0.10

-

1311072234

31-40/F

2018

NC

IA

7.36 x104

7.31 x104

8.58 x103

-

-

-

-

IA : 0 ; IB : +0.93

–0.93

1310064958

61-70/M

2314

Guadeloupe

IA

4.73 x105

5.50 x105

-

-

-

-

-

IA : −0.07

-

1311009716

51-60/M

2339

NC

IB

1.70 x106

-

2.30 x106

-

-

-

-

IB : −0.13

-

1311071503

1-10/M

358

NC

IA

2.72 x105

2.85 x106

3.22 x104

-

-

-

-

IA : −1.02 ; IB : +0.93

−1.95

1310024892

1-10/M

NC

Morocco

IA

6.14 x106

6.47 x106

-

-

-

-

-

IA : −0.02

-

1310066012

1-10/F

1113

Morocco

IA

2.04 x103

2.48 x103

-

-

-

-

-

IA : −0.09

-

1309036458

11-20/M

3393

Cameroun

IIA

3.42 x105

-

-

4.66 x106

-

-

-

IIA : −1.13

-

1309064503

1-10/F

2470

Algeria

IA

3.27 x103

3.99 x103

-

-

-

-

-

IA : −0.09

-

1309044888

11-20/M

1352

Guinea

IB

4.10 x105

-

7.00 x105

-

-

-

-

IB : −0.23

-

1310077770

31-40/M

NC

Ethiopia

IB

1.48 x106

-

4.35 x106

-

-

-

-

IB : −0.47

-

1310044717

51-60/F

6500

NC

IB

7.16 x105

-

1.32 x106

-

-

-

-

IB : −0.26

-

1311011402

1-10/M

993

Ethiopia

IB

7.89 x105

-

1.38 x106

-

-

-

-

IB : −0.24

-

1311018712

41-50/M

NC

Ethiopia

IB

4.63 x103

-

1.22 x104

-

-

-

-

IB : −0.42

-

1310005428

21-30/M

3400

Morocco

IA

5.87 x103

1.52 x104

1.37 x102

-

-

-

-

IA : −0.41 ; IB : +1.63

–2.05

1311011353

41-50/F

1736

Ethiopie

IB

4.43 x104

-

9.28 x104

-

-

-

-

IB : −0.32

-

1310023611

21-30/F

1388

Tunisia

IA

3.84 x104

2.09 x104

4.57 x103

-

-

-

-

IA : +0.26 ; IB : +0.92

−0.66

1380219001

51-60/M

4000

Madagascar

IIIA

4.73 x105

-

-

-

-

3.10 x104

-

IIIA : +1.18

-

1311018504

61-70/F

1334

NC

IB

6.96 x104

-

2.09 x105

-

-

-

-

IB : −0.48

-

1309047363

11-20/F

2000

NC

IB

9.76 x104

-

1.30 x105

-

-

-

-

IB : −0.12

-

1310011213

1-10/M

1831

Algeria

IA

7.89 x104

6.68 x104

4.77 x103

-

-

-

-

IA : +0.07 ; IB : +1.22

−1.15

1309064723

11-20/F

1494

Morocco

IA

3.22 x104

2.76 x104

-

-

-

-

-

IA : +0.07

-

1309039311

1-10/M

NC

Guinea

IB

1.25 x105

-

5.35 x105

-

-

-

-

IB : −0.63

-

1310053557

21-30/M

269

NC

IA

9.38 x101

6.33 x102

-

-

-

-

-

IA : −0.83

-

1310078280

1-10/F

857

Tunisia

IA

6.06 x104

3.41 x104

-

-

-

-

-

IA : +0.25

-

1380311211

61-70/M

1269

Madagascar

IIIA

1.48 x104

-

-

-

-

4.25 x104

 

IIIA : −0.46

-

1311062298

11-20/F

940

Morocco

IB

2.95 x102

2.64 x102

-

-

-

-

-

IA : +0.05

-

  1. Each sample was tested with the reference RT-qPCR assay targeting the 5’UTR of HAV and the 6 genotype-specific assays. The subtyping results were compared with those obtained with sequencing by the NRC. Concentrations are given in genome copies per μl of serum. 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 IB subtypes by RT-qPCR assays is calculated by the formula: (log10 (genomes copies determined by IA RT-qPCR/genomes copies determined by IB RT-qPCR assays)).