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Table 6 Pairwise XtX values and outlier locus information for each of the eight marine-freshwater comparisons. LG is linkage group, although scaffolds are also included. Position refers to the nucleotide position along the linkage group

From: Contemporary ancestor? Adaptive divergence from standing genetic variation in Pacific marine threespine stickleback

LG

Position

CA01 (6.02)

CA02 (5.25)

CA03 (4.92)

OR01 (5.85)

OR02 (5.65)

WA01 (5.34)

BC01 (5.47)

AK01 (5.10)

Total

Gene name

Marine

1

4996549

    

6.16

   

1

  

1

10025443

  

5.79

   

5.79

5.51

3

  

1

10025526

  

5.65

   

5.65

5.59

3

  

1

11533385

       

5.73

1

  

1

11653098

  

4.98

     

1

 

YES

1

11653099

  

5.02

     

1

 

YES

1

20898321

    

9.04

   

1

  

1

21511402

       

6.15

1

 

YES

2

7863977

  

5.22

  

5.49

 

5.69

3

gpc51

 

2

8625488

6.34

7.66

5.89

8.34

 

6.29

5.89

7.45

7

novel

YES

2

9813668

6.59

5.76

7.36

7.24

 

8.54

7.36

6.07

7

tub

 

4

7681527

 

6.24

 

7.18

  

7.30

7.42

4

  

4

7713883

 

5.80

7.46

7.13

 

6.06

7.46

6.03

6

  

4

7713914

 

6.01

7.21

6.99

 

5.99

7.21

5.94

6

  

4

7713937

   

5.93

7.24

   

2

  

4

7728366

 

6.25

 

6.87

 

6.22

7.53

7.71

5

  

4

7728396

 

6.03

 

6.83

 

5.98

7.60

7.57

5

  

4

8322977

   

5.59

    

1

  

4

8322992

   

5.69

    

1

  

4

8323014

       

5.68

1

 

YES

4

8585549

   

7.19

 

6.44

7.36

7.47

4

 

YES

4

11606261

     

6.16

  

1

  

4

12214334

     

6.59

7.41

5.84

3

  

4

14370896

 

5.78

 

6.32

 

6.53

5.61

6.15

5

  

4

14622355

     

6.48

 

5.90

2

  

4

14622379

   

5.51

 

6.51

 

5.74

3

  

4

14622421

     

6.34

 

6.06

2

  

4

15435194

     

6.48

 

7.45

2

tenm1

 

4

16418859

      

7.46

6.00

2

  

4

17168113

   

5.98

7.20

   

2

  

4

20971949

   

6.91

6.38

   

2

  

7

6070847

 

5.36

5.37

  

5.68

  

3

  

7

8961600

  

5.23

     

1

  

7

8961654

  

5.27

     

1

  

7

10052612

    

5.90

   

1

NRXN2 (1 of many)

 

7

10226709

   

5.91

    

1

S100P

 

7

10226775

6.44

5.48

5.64

6.67

 

6.69

5.64

7.46

7

S100P

 

7

12677333

6.57

7.81

5.56

6.89

 

8.56

5.56

7.45

7

  

7

12677411

 

5.64

5.77

7.65

9.61

6.31

5.77

5.33

7

  

7

12677426

6.59

7.70

5.53

6.74

 

8.43

5.53

7.80

7

  

7

12677430

 

7.57

5.34

6.97

 

8.25

 

7.52

5

  

7

12677436

6.50

7.60

5.49

6.85

 

8.33

5.49

7.44

7

  

7

12677445

6.47

7.56

5.34

6.91

 

8.39

 

7.46

6

  

7

15234950

   

5.90

    

1

  

7

21461506

    

6.79

   

1

 

YES

7

22693167

    

5.81

   

1

  

8

8728904

     

6.48

7.33

7.34

3

csnk1g2a

YES

9

17327750

    

5.93

   

1

  

9

17335552

     

5.68

5.49

 

2

  

11

8223470

  

5.06

     

1

  

11

11238927

    

6.02

   

1

  

12

2181823

     

6.28

 

5.58

2

OVGP1

 

12

2181850

 

5.35

   

6.28

5.70

6.12

4

OVGP1

 

12

9470238

       

5.23

1

lzic

 

12

9470277

 

5.35

5.56

   

5.56

 

3

lzic

 

12

12295357

6.67

7.58

5.66

5.90

 

6.82

5.66

7.60

7

  

12

12295366

6.47

7.73

5.73

5.93

 

6.81

5.73

7.55

7

  

12

13222579

 

7.58

   

6.70

 

7.62

3

  

12

13222580

 

5.51

 

7.59

9.68

  

5.51

4

  

12

13222581

 

5.55

 

7.85

9.82

  

5.53

4

  

12

13901004

 

5.55

5.78

   

5.78

 

3

  

12

13901024

 

5.54

5.86

5.67

  

5.86

 

4

  

16

6336339

 

5.61

      

1

novel

 

16

6336342

6.46

6.04

4.97

6.52

7.19

6.79

 

5.71

7

novel

 

16

12118969

  

5.16

     

1

 

YES

16

12119050

  

4.97

     

1

  

17

6414038

  

5.47

 

5.88

5.64

5.47

 

4

  

18

5648550

6.44

5.87

7.45

5.86

5.70

8.56

7.45

7.42

8

  

18

5690662

6.51

6.03

5.47

6.14

6.33

6.77

5.47

5.78

8

  

19

14803674

      

7.55

6.29

2

  

20

5871717

  

5.31

7.67

 

6.61

 

6.07

4

novel

 

20

5995635

6.46

7.69

7.49

7.42

 

6.71

7.49

5.88

7

  

20

5995636

6.51

7.71

7.45

7.47

 

7.06

7.45

5.97

7

  

20

7174610

6.58

5.93

7.39

7.36

5.95

6.13

7.39

5.91

8

  

20

7634239

     

6.40

  

1

  

20

7634241

     

6.15

5.56

5.68

3

  

20

9060756

  

5.48

6.79

8.65

5.39

5.48

 

5

  

20

10061253

   

5.56

 

6.73

5.67

5.75

4

  

20

10061286

   

5.77

 

6.65

5.54

7.49

4

 

YES

20

11455928

       

5.32

1

  

20

11455931

       

5.40

1

  

20

11456012

       

5.50

1

  

21

2815735

 

5.45

5.74

   

5.74

5.38

4

  

21

2815747

    

6.21

   

1

  

21

2957590

  

4.94

     

1

RAMP3

 

21

6689655

     

6.13

 

5.90

2

  

21

6689742

     

6.01

 

5.63

2

  

27

3491221

 

5.57

5.85

   

5.85

5.51

4

  

27

3524707

6.49

7.60

7.43

7.34

 

8.42

7.43

7.44

7

novel

 

27

4397445

6.32

5.66

7.39

7.12

 

6.55

7.39

7.52

7

  

27

4468817

 

7.64

7.24

6.82

 

8.43

7.24

7.51

6

  

37

23177

   

6.08

 

6.05

 

5.72

3

 

YES

37

253614

   

5.83

 

6.44

5.68

5.82

4

 

YES

47

326567

  

5.38

  

5.43

  

2

  

47

326633

  

5.28

  

5.44

  

2

  

47

579296

 

5.63

7.56

5.79

 

6.56

7.56

5.69

6

  

47

579344

 

5.77

7.41

5.84

 

6.68

7.41

5.76

6

  
  1. CA01 CA02 etc. identifies the marine group that was compared to the Brannen Lake British Columbia freshwater population. The number in brackets () after each population identifier is the XtX threshold value used for that marine-freshwater comparison above which a locus was flagged as an outlier. If the locus was an outlier in that comparison its XtX value is given; otherwise the cell is blank. Total refers to the number of comparisons for which that locus was flagged as an outlier. If Marine = YES that same locus was also flagged as an outlier in the marine environment