Table 1 Effect of class or subclass, ecotype and region on (A) genomic and (B) transcriptomic data

A) genome

All classes

Class I

Class II

Variables

Df_{variable/residual}

F

Variables

Df_{variable/residual}

F

Df_{variable/residual}

F

Class

2/757

38.7***

Subclass

5/378

12172***

5/252

36849***

Ecotype

1/757

1.49

Ecotype

1/378

205***

1/252

38.9***

Region

3/757

1.01

Region

3/378

71.9***

3/252

155***

Ecotype*region

3/757

0.20

Ecotype*region

3/378

29.8***

3/252

11.4***

Class*ecotype

2/757

0.12

Subclass*ecotype

5/378

107***

5/252

6.11***

Class*region

6/757

0.29

Subclass*region

15/378

32.4***

15/252

11.4***

B) transcriptome

Class I

Class II

Variables

Df_{variable/residual}

F

Variables

Df_{variable/residual}

F

Df_{variable/residual}

F

Class

2/1032

45.5***

Subclass

5/528

562***

5/352

930***

Ecotype

1/1032

0.73

Ecotype

1/528

1.07

1/352

3.37(*)

Region

3/1032

0.49

Region

3/528

9.34***

3/352

22.1***

Ecotype*region

3/1032

0.56

Ecotype*region

3/528

1.44

3/352

0.82

Class*ecotype

2/1032

0.86

Subclass*ecotype

5/528

9.37***

5/352

2.57(*)

Class*region

6/1032

3.30**

Subclass*region

15/528

11.0***

15/352

8.65***