Table 1 Numbers of cases and sequences included in this study

From: Lethal Borna disease virus 1 infections of humans and animals – in-depth molecular epidemiology and phylogeography

Parameter

Domestic mammalsa

Humans

Shrews

Laboratory strainsb

Total

Cases analysed in this study

231

29c

7

2

269

Fresh or fresh-frozen samples

48

14

7

2

71

FFPE samples

183

15

0

0

198

Confirmed by RT-qPCR

207

28

7

n.a.d

242

Comparative Mix-1/-6 results

204

23

7

n.a.

234

Selected for sequencing

120

28

7

2

157

Sanger sequencing

31

5

7

0

43

High throughput sequencing

89

23

0

2

114

Bait-based enrichment

14

2

0

0

16

Cases with sequences

102

25

7

2

136

Complete coding genomese

36

16

0

2

54

At least N-X/P genese

66

9

7

0

82

Publicly available sequences

     

Total cases included

55

16

36

3

110

Complete coding genomese

9

15

10

2

36

At least N-X/P genese

46

1

26

1

74

Total cases included

286

47f

43

5

381

Confirmed BoDV-1 infectionsg

262

46f

43

5

356

Cases with sequences

157

41

43

5

246

Coding-complete genomes

45

31

10

4

90

At least N-X/P genes

112

10

33

1

156

Total cases with available location

278

43

42

2

365

Confirmed with available locationg

254

42

42

2

340

Confirmed with available yearg

262

46

n.a.

3

309

Confirmed with available monthf

257

45

n.a.

0

302

Sequences with available location

155

39

42

2

238

  1. aDomestic mammals also include two cases of non-domesticated zoo animals (pygmy hippopotamus).
  2. bBoDV-1 isolates He/80, strain V, H24, H215 and DessauVac, which all originate from domestic mammals and have passaging histories in cell culture and/or experimental animals extending beyond the initial isolation in cell culture, were classified as laboratory strains. If more than one sequence per isolate was available, only the original sequence was included. The cell culture-derived materials from cases H640 and H3053 are not included in this table since they were used only for re-sequencing and correction of sequence database entries.
  3. cHuman samples analysed in this study originated from unpublished cases as well as from previously published cases without published BoDV-1 sequence7,9,13,14,16,17,18,43,45.
  4. dn.a. = not analysed.
  5. eComplete coding BoDV-1 genomes: 8,769 nucleotides, ranging from genome position 54 (start of the N gene) to 8822 (end of the L gene); N-X/P sequences: 1,824 bp, ranging from position 54 to 1877 (end of the P gene).
  6. fIn addition to the 29 human cases analysed during this study and the 16 human cases with publicly available sequences, two further published human cases without available sequence were regarded as confirmed human BoDV-1 infections based on their unequivocal epidemiological link in combination with detectable seroconversion. These two patients are the donor and the surviving liver recipient of the solid organ transplant cluster published by Schlottau et al.8.
  7. gCases confirmed by either positive RT-qPCR result or publicly available sequences.
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