Table 3

Comparison of the accuracy and precision among qOLA_CNV, Pyro_CNV and Pyro_Splice in the genotyping of 100 randomly sampled commercial and 159 Large White pigs.

qOLA(%)

Pyrosequencing (%)


Breed or Cross a (Type of DNA)

Estimated Genotype b

No. of pigs

Expectedc

Observed d in qOLA_CNV

CVe

Expected

Observed in Pyro_CNV

CV

Expected

Observed in Pyro_Splice

CV


D × L·LW (Blood DNA)

I1/i

70

33.3

33.7

2.9

33.3

31.8

6.9

33.3

35.9

2.2

I2/i

22

50

49.4

1.8

50

44.7

7.2

25

27.7

2.6

IP/i

5

33.3

34.3

na f

33.3

29.7

na

0

0

na

i(IBe)/i

3

0

0

na

0

1.8

na

0

0

na

LW (Hair follicle DNA)

I1/I1or I3/i(IBe)

51

50

50.7

3.4

50

47.1

11.7

50

51.4

2.1

I1/I2 or I3/IP

58

60

58.2

3.4

60

54.6

15.9

40

41.8

2.4

I1/IP or I2/i(IBe)

12

50

51.0

3.1

50

47.4

7.3

25

27.9

3.8

I2/I2

24

66.7

65.7

3.5

66.7

61.1

11.3

33.3

34.3

6.2

I1/I3

2

60

57.3

na

60

58.3

na

60

61.2

na

I2/IP

6

60

59.2

na

60

52.3

na

20

22.8

na

I2/I3

5

66.7

64.5

na

66.7

60.3

na

50

50.4

na

I3/I3

1

66.7

63.4

na

66.7

58.7

na

66.7

62.9

na


a, D, L and LW represent Duroc, Landrace and Large White, respectively.

b, Genotypes were assigned by the combined ratios of qOLA_CNV and Pyro_Splice.

c, Ratios corresponding to each genotype are presented in Table 1.

d, Mean of the observed ratios in the assay.

e, Coefficient of variation.

f, 'na' means not analyzed. Genotypes containing more than 10 typed individuals were selected for the CV estimation.

Seo et al. BMC Genetics 2007 8:81   doi:10.1186/1471-2156-8-81

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