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Table 4 Positive selection and sequence exchange events of non-TNLs in six Fragaria species

From: Lineage-specific duplications of NBS-LRR genes occurring before the divergence of six Fragaria species

Family

Ka/Ks a

ω (dN/dS) b

2Δln c

LR test c

Sequence exchange events d

family0

0.45

0.42

35.48

**

11

family1

0.78

0.83

59.37

**

28

family2

0.59

0.59

75.22

**

39

family3

1.46

0.99

43.01

**

0

family4

0.64

0.72

4.67

 

10

family5

0.93

–

  

0

family6

0.83

0.93

72.76

**

11

family7

0.58

0.68

73.55

**

10

family8

0.69

0.49

27.03

**

63

family9

0.63

0.54

15.19

**

5

family10

0.60

0.36

10.98

**

12

family11

0.91

0.97

62.72

**

5

family12

0.67

–

  

0

family13

0.82

0.87

146.39

**

77

family14

1.14

–

  

0

family15

0.42

0.40

0.19

 

4

family16

0.41

–

  

0

family17

–

–

  

0

family18

0.51

0.43

0.00

 

0

family19

0.65

0.65

37.48

**

3

family20

0.79

0.93

129.67

**

5

family21

0.74

0.92

10.52

**

4

family22

0.68

0.58

25.75

**

119

family23

0.64

0.58

47.88

**

2

family24

0.45

0.50

23.82

**

4

family25

0.58

0.54

111.42

**

8

family26

0.57

0.59

74.25

**

18

family27

1.00

1.09

116.83

**

26

family28

0.72

0.62

18.65

**

0

family29

0.92

–

  

0

family30

0.94

–

  

0

family31

0.73

–

  

0

family32

0.96

0.87

47.42

**

16

family33

1.06

0.95

98.69

**

8

family34

0.71

0.44

1.14

 

1

family35

0.62

–

  

0

family36

0.93

–

  

0

family37

0.65

–

  

0

family38

0.54

0.50

0.00

 

1

family39

0.50

0.55

26.57

**

4

family40

0.78

0.77

6.29

*

0

family41

0.60

–

  

0

family42

0.66

0.65

179.47

**

36

family43

0.42

0.52

13.77

**

0

family44

0.60

–

  

0

family45

0.95

–

  

0

family46

0.67

0.68

58.45

**

21

family47

0.31

0.34

160.78

**

5

family48

0.51

–

  

0

family49

0.27

–

  

0

family50

0.71

0.88

188.51

**

6

family51

0.47

0.44

69.96

**

15

family52

0.81

–

  

0

family53

0.54

–

  

0

family54

0.65

0.58

34.41

**

23

family55

1.70

2.23

113.38

**

1

family56

0.66

0.49

10.66

**

10

family57

0.51

0.32

0.00

 

2

family58

0.55

0.42

15.31

**

1

family59

0.25

0.34

18.49

**

1

family60

–

–

  

0

family61

0.84

–

  

0

family62

0.67

–

  

0

family63

0.17

–

  

0

family64

0.71

0.73

159.69

**

16

family65

0.45

0.50

8.95

*

25

family66

0.92

0.88

36.06

**

0

family67

0.44

0.15

0.00

 

0

family68

0.82

–

  

0

family69

0.55

0.32

8.34

*

1

family70

1.16

0.47

57.04

**

2

family71

0.70

–

  

0

family72

0.93

1.16

7.52

*

0

family73

0.99

–

  

0

family74

0.57

0.57

62.86

**

4

family75

0.63

0.80

4.68

 

0

family76

0.58

0.57

9.64

**

6

family77

0.59

0.66

21.23

**

0

family78

0.62

–

  

0

family79

0.57

0.55

80.40

**

11

family80

0.67

0.67

297.98

**

7

family81

0.55

0.63

15.57

**

0

family82

2.48

–

  

0

family83

0.87

–

  

0

family84

1.25

–

  

0

family85

0.70

0.78

48.80

**

23

family86

1.21

1.29

91.70

**

0

family87

0.99

0.91

397.48

**

6

family88

0.89

1.09

27.11

**

3

family89

0.36

0.43

0.69

 

0

family90

0.33

–

  

0

family91

0.36

0.36

7.96

*

0

family92

0.31

0.32

0.75

 

1

family93

0.42

–

  

0

family94

0.71

–

  

0

family95

0.72

–

  

0

family96

0.60

–

  

0

family97

0.87

0.89

54.59

**

3

family98

0.41

0.36

56.24

**

0

family99

0.58

0.54

3.18

 

0

family100

0.25

0.22

1.64

 

21

family101

0.56

0.61

9.90

**

15

family102

0.90

–

  

0

family103

0.77

–

  

0

family104

0.61

0.68

61.66

**

6

family105

0.60

0.53

20.30

**

0

family106

0.26

–

  

0

family107

0.70

0.68

22.56

**

18

family108

0.49

–

  

0

family109

0.29

0.32

0.00

 

0

family110

0.45

–

  

0

family111

0.60

0.45

14.82

**

1

family112

0.40

0.44

0.00

 

0

family113

0.55

0.76

12.69

**

0

family114

0.76

–

  

0

family115

0.37

–

  

0

family116

0.76

0.80

102.63

**

7

family117

0.69

0.47

9.51

**

2

family118

0.68

0.60

46.89

**

3

family119

–

–

  

0

family120

0.42

–

  

0

family121

0.24

–

  

0

family122

0.20

0.26

0.41

 

0

family123

0.50

–

  

0

family124

1.62

0.77

72.18

**

1

family125

0.73

0.84

9.74

**

1

family126

0.62

–

  

0

family127

0.34

–

  

0

family128

0.53

0.51

22.29

**

6

family129

0.63

–

  

0

family130

0.71

–

  

0

family131

0.70

–

  

0

family132

–

–

  

0

family133

1.06

–

  

0

family134

0.90

–

  

0

family135

0.62

–

  

0

family136

0.75

–

  

0

family137

0.75

–

  

0

family138

0.84

–

  

0

family139

0.52

–

  

0

family140

0.68

–

  

0

family141

0.69

–

  

0

family142

0.49

–

  

0

family143

0.80

–

  

0

family144

1.22

–

  

0

family145

0.53

–

  

0

  1. aAverage Ka/Ks ratio of each gene family by using MEGA6; b ω (dN/dS) value of each gene family was calculated by using branch model in PAML software; c 2Δln means the LR-test result using site model in PAML software; * and ** represent significant (2Δln > 5.991, P < 0.05) and highly significant (2Δln > 9.210, P < 0.01) tests for positive selection between model M7 and M8; d Sequence exchange event shows the statistically significant sequence exchange events (P < 0.05)
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BMC Genomics

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