Table 2 Summary of 43 and 9 genes that had undergone positive selection in japonica and indica, respectively.

1

MOC2

11.7

3.3

−2.4

−1.6

−1.2

2

OsNAAT1

4.6

1.8

−2.1

−1.8

−1.1

5

TCD5

16.1

1.1

−2.7

0.4

−1.3

9

SLL1

7.4

1.7

−2.6

−1.7

−1.2

2

NIGT1

14.7

6

−2.2

−2.2

−0.2

3

OsCDC48

6.7

3.9

−2

−2.7

−1.6

5

OsHAP3B

3.6

3.5

−2.1

−2.3

−1.7

7

Obgc

39.6

27.6

−2.3

−2.6

−1.2

7

spl5

6.4

4.5

−2.2

−2.2

−1.1

1

OsTLP27

1.1

3.5

1.5

−2.2

0.2

1

PHD1

0.7

3.7

0.7

−2.4

−1.7

1

SLAC7

1.6

5.7

−1.2

−2.5

0.2

1

OsHAP3A

1.4

3.7

0

−2.2

−1.2

1

OsSCAR1

1.3

3.4

0.4

−2

−0.5

1

RDD1

0.7

3.7

2.7

−2.3

−0.2

1

PAPST1

2.7

14.2

2.4

−2.3

0.9

2

OsGRP

1.7

5.1

−1.2

−2.3

−0.6

2

LYL1

0.6

8.8

1.6

−2

−0.8

2

OsCUL3a

1.3

7.9

−1.2

−2.7

−0.2

2

OsTSD2

4.2

5.7

−1.2

−2.3

−1.4

2

OsHPL3

0.6

3.5

0.2

−2.5

−0.5

3

OsPHR1

5.2

4.6

−1.7

−2.2

0

3

AL1

4.1

3

−1.8

−2.3

−0.3

3

RLS3

1.1

4.5

0.3

−2.1

−1.4

3

OSHB4

1.6

5.7

0.3

−2.4

−0.9

3

OsSHM1

2.2

5.6

−0.5

−2.2

−1.2

3

SPL3

1.9

3.6

−0.7

−2

−1.2

3

OsPIL13

3

6.7

−1.5

−2.4

−0.8

3

OsNaPRT1

1.2

5.5

0.4

−2.3

−1.1

4

RLIN1

2.5

3.8

−1.9

−2.2

−0.6

4

GIC

5.4

5.2

−1.7

−2.3

−1.3

4

YSS1

1.6

7.3

−0.6

−2.3

−1.1

4

OsSGRL

3.5

6.1

−1.8

−2.5

−0.6

5

OsRopGEF10

0.7

3.5

4.7

−2.4

−0.7

6

LRD6-6

0.7

3.4

0.3

−2.3

−0.8

6

SPP

0.7

4.4

3.5

−2.5

−0.9

8

CSN6

1.9

4.2

−0.5

−2.5

−0.5

9

YLC1

1.3

3

−0.8

−2.2

1

9

OsCYO1

2.1

8.6

−0.2

−2.5

−0.7

9

SG1

2.9

4.4

−1.6

−2.4

−0.6

9

SGR

1.2

3.6

−0.8

−2.5

−1

10

TCD10

0.8

4.5

0

−2.4

1.2

10

REL2

1.1

9.1

0.9

−2.7

−1

10

OsCAO2

7.9

23.8

−1.6

−2.6

−1.4

10

OsCAO1

2.6

8.8

−1.8

−2.7

−1.4

11

YGL138(t)

1.1

4.5

−0.5

−2.5

0.7

12

etl2

0.8

4.9

−1.2

−2.4

−0.8