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Table 4 Marker-assisted selection accuracy and efficiency for the significant SNPs associated with leaf chlorophyll content under non-SCN infestation

From: Genome-wide association study and genomic selection for soybean chlorophyll content associated with soybean cyst nematode tolerance

 

Selection_accuracy_(%)a

Selection_efficiency_(%)b

Favorable_allelec

Gm04_2,574,201_T_G

44.32

30.23

G

Gm04_7,672,403_A_G

64.10

38.46

A

Gm05_40,299,923_A_G

50.00

33.77

G

Gm06_11,948,808_G_A

45.76

31.76

G

Gm06_16,792,113_T_C

43.88

28.10

T

Gm06_43,980,786_G_A

45.54

30.87

G

Gm06_47,439,414_C_T

49.02

32.05

T

Gm07_3,953,270_T_C

56.25

34.18

T

Gm07_3,990,308_A_G

56.00

34.15

A

Gm10_4,458,104_G_A

77.78

42.86

A

Gm10_41,610,215_C_T

50.65

33.91

T

Gm11_3,641,716_A_C

48.53

31.43

C

Gm11_4,702,578_C_A

41.18

27.18

A

Gm11_15,558,504_T_C

66.67

42.31

T

Gm11_37,978,746_G_T

56.98

37.40

G

Gm11_38,183,607_G_A

58.62

39.53

G

Gm12_1,460,019_T_C

49.00

34.75

T

Gm13_38,032,737_G_A

71.79

45.90

A

Gm19_42,195,616_G_A

62.90

39.80

G

Gm19_48,074,289_A_C

87.80

54.55

C

Gm20_1,621,036_T_C

35.94

25.56

T

Gm20_33,580,029_C_T

56.00

36.84

C

  1. aSelection accuracy = 100*[(Number of genotypes having high leaf chlorophyll content with the favorable SNP allele)/(Number of genotypes having high leaf chlorophyll content with the favorable SNP allele + Number of genotypes having low leaf chlorophyll content with the favorable SNP allele)
  2. bSelection efficiency = 100*[(Number of genotypes having high leaf chlorophyll content with the favorable SNP allele)/(Total number of genotypes having the favorable SNP allele)]
  3. cFavorable allele corresponds to the allele with the highest frequency in the top 57 genotypes having the highest chlorophyll content under non-SCN infestation
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BMC Genomics

ISSN: 1471-2164

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