Table 1 Periods, phase and amplitudes and RAE values of time course gene expression of central loop genes: LHY1.1 (Bradi3g16515.1), LHY1.2 (Bradi3g16515.2) and TOC1 (Bradi3g48880.1) in green plant parts and roots. Period and RAE values were estimated with BRASS software from the whole dataset (ZT2 to ZT78) for the individual time course expression curves measured by qRT-PCR. Amplitudes were calculated from the 2nd peak of the curve for LHY1.1 and LHY1.2, while the 1st peak was taken into account for TOC1. Phase: time of expression maxima with reference to daybreak. Amplitude: twice the average distance from the mean expression maxima. RAE: relative amplitude error; Fourier fit to experimental data varying between 0 (perfect fitted rhythm) and 1 (rhythm not significant). Values are means ± SD from two biological replicates (except *, where only one dataset was appropriate for analysis). n/a: no data result from data analysis. LD: 18:6 light: dark cycles. LL: 24:0 light. DD: 0:24 dark. 80%: well-watered conditions; 80% relative soil water content. 40%: drought stress conditions; 40% relative soil water content.

LHY1.1

80%

Green plant parts

LD18/6

24.10

0.18

28.00

0.00

2.27

0.16

0.34

0.09

LL

25.32

0.33

28.00

0.00

1.37

0.02

0.73

0.03

DD

n/a

n/a

30.00

2.83

n/a

n/a

n/a

n/a

Root

LD18/6

24.35

0.13

26.00

2.83

0.26

0.03

0.44

0.08

LL

n/a

n/a

26.00

2.83

n/a

n/a

n/a

n/a

DD

n/a

n/a

24.00

–*

n/a

n/a

n/a

n/a

40%

Green plant parts

LD18/6

23.76

0.27

28.00

0.00

2.05

0.10

0.32

0.09

LL

26.16

0.19

28.00

0.00

0.89

0.05

0.72

0.05

DD

n/a

n/a

30.00

2.83

n/a

n/a

n/a

n/a

Root

LD18/6

23.43

0.08

28.00

0.00

0.32

0.10

0.50

0.09

LL

27.48

1.21

26.00

2.83

0.19

0.03

0.73

0.01

DD

n/a

n/a

28.00

–*

n/a

n/a

n/a

n/a

LHY1.2

80%

Green plant parts

LD18/6

23.99

0.00

26.00

2.83

2.30

0.10

0.26

0.01

LL

25.10

0.65

26.00

2.83

1.34

0.14

0.77

0.02

DD

n/a

n/a

28.00

0.00

n/a

n/a

n/a

n/a

Root

LD18/6

24.35

0.22

24.00

0.00

0.36

0.09

0.55

0.08

LL

n/a

n/a

24.00

0.00

n/a

n/a

n/a

n/a

DD

n/a

n/a

20.00

–*

n/a

n/a

n/a

n/a

40%

Green plant parts

LD18/6

23.61

0.49

28.00

0.00

1.86

0.06

0.44

0.03

LL

26.39

0.29

32.00

0.00

1.20

0.02

0.70

0.11

DD

n/a

n/a

32.00

0.00

n/a

n/a

n/a

n/a

Root

LD18/6

23.03

0.36

26.00

2.83

0.36

0.04

0.45

0.08

LL

26.51

0.72

26.00

2.83

0.27

0.04

0.53

0.19

DD

n/a

n/a

26.00

2.83

n/a

n/a

n/a

n/a

TOC1

80%

Green plant parts

LD18/6

23.80

0.07

12.00

0.00

1.22

0.25

0.26

0.08

LL

27.51

0.86

12.00

0.00

0.75

0.01

0.55

0.09

DD

30.25

1.01

20.00

0.00

0.17

0.02

0.53

0.06

Root

LD18/6

24.17

0.27

12.00

0.00

0.25

0.02

0.45

0.06

LL

n/a

n/a

14.00

2.83

n/a

n/a

n/a

n/a

DD

n/a

n/a

22.00

2.83

n/a

n/a

n/a

n/a

40%

Green plant parts

LD18/6

24.20

0.06

12.00

0.00

1.12

0.00

0.23

0.09

LL

25.00

1.51

12.00

0.00

0.27

0.14

0.54

0.04

DD

n/a

n/a

20.00

0.00

n/a

n/a

n/a

n/a

Root

LD18/6

24.37

0.22

12.00

0.00

0.23

0.02

0.49

0.08

LL

n/a

n/a

16.00

0.00

n/a

n/a

n/a

n/a

DD

n/a

n/a

20.00

5.66

n/a

n/a

n/a

n/a