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Table 3 Summary of associations for 12 traits in the two environments, Lingshui and Hangzhou

From: Genetic variation and association mapping for 12 agronomic traits in indica rice

 

Lingshui

Hangzhou

Trait a

Num. of sig. locus

R 2 (%) b

Known locus c

Num. of sig. locus

R 2 (%) b

Known locus c

TN

4

16.27

 

8

35.10

 

TA

7

24.55

TAC1[3]

9

23.95

TAC1[3]

PH

10

60.19

 

15

61.26

D3[67]; IPA1 [8]; d27 [68]

FLL

17

37.09

NAL1[11]

28

46.17

 

FLW

24

40.73

NAL1[11]

33

39.62

NAL1[11]

FLLW

14

33.76

NAL1[11]

25

39.63

 

FLA

4

11.38

 

8

20.10

 

PN

15

37.02

OsTB1[69]

16

46.02

OsTB1[69]; te[70]

PT

12

33.62

 

10

23.28

 

PL

7

10.29

 

9

23.60

 

PC

4

72.19

Rc[71]

6

71.67

Rc[71]

HC

8

36.30

Rc[71]; Ibf[72] d

5

38.69

Ibf[72] d

Total

126

  

172

  

Average

10.5

34.45

 

14.3

39.09

 
  1. aTN, Tiller number; TA, Tiller angle; PH, Plant height; FLL, Flag leaf length; FLW, Flag leaf width; FLLW, The ratio of flag leaf length and flag leaf width; FLA, Flag leaf angle; PN, Panicle number; PT, Panicle type; PL, Panicle length; PC, Pericarp color; HC, Hull color. b R 2 (%), Total of phenotypic variation for each trait explained by all significant loci; cDetails of the known loci are shown in Additional file 11: Table S8 and Additional file 12: Figure S4; dThe cause gene has not been confirmed