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Table 6 Epistasis and epistasis by environment interaction on yield and P use efficiency traits

From: Identification of quantitative trait loci for phosphorus use efficiency traits in rice using a high density SNP map

Trait

QTL

Chr

Interval

Position a

QTL

Chr

Interval

Position a

aa b

h 2(aa)% c

aae d

h 2(aae)% e

BIOM

 

2

BIN292-BIN293

74.8

 

6

BIN962-BIN963

128.4

−51.91**

10.2

  
  

3

BIN375-BIN376

28.2

 

6

BIN891-BIN892

52.2

−26.30**

2.6

  
  

3

BIN413-BIN414

76.2

 

4

BIN562-BIN563

8.2

−29.30**

3.2

  
  

3

BIN413-BIN414

76.2

 

3

BIN483-BIN484

125.3

−26.12**

2.6

  
  

7

BIN990-BIN991

26.4

 

11

BIN1515-BIN1516

104.2

29.65**

3.3

19.36* (aae4)

0.5

HI

qBIOM1

1

BIN30-BIN31

24.9

 

6

BIN862-BIN863

29.6

−1.23**

4.3

  
  

1

BIN80-BIN81

78.6

 

3

BIN435-BIN436

92.3

1.24**

4.4

  
  

2

BIN242-BIN243

17.7

 

2

BIN337-BIN338

162.0

−1.81**

9.3

  
  

6

BIN909-BIN910

75.3

 

10

BIN1328-BIN1329

22.4

0.99**

2.8

  

Yield

 

3

BIN530-BIN531

177.2

 

4

BIN580-BIN581

14.7

−26.25**

5.2

  
  

5

BIN694-BIN695

5.3

 

10

BIN1321-BIN1322

16.8

−21.15**

3.4

  
  

12

BIN1572-BIN1573

49.2

qPUEg12

12

BIN1612-BIN1613

99.1

−23.47**

4.2

  

PUP

qPUP1

1

BIN46-BIN47

36.1

qPUP7

7

BIN1007-BIN1008

55.0

0.07**

2.3

  
  

2

BIN241-BIN242

17.5

 

8

BIN1169-BIN1170

111.4

0.11**

5.8

  
 

qPUP10

10

BIN1348-BIN1349

37.7

 

12

BIN1613-BIN1614

104.3

0.04*

0.9

  

PHI

qPHI1,qHI1,qstrPUE1-1

1

BIN59-BIN60

63.4

qPHI11

11

BIN1392-BIN1393

2.2

0.58

0.4

1.19* (aae4)

0.5

  

2

BIN218-BIN219

0

 

5

BIN815-BIN816

113.3

−1.65**

3.1

  
  

3

BIN490-BIN491

129.7

 

9

BIN1290-BIN1291

104.7

2.18**

5.5

  
  

5

BIN691-BIN692

3.0

 

11

BIN1405-BIN1406

17.9

−1.49**

2.6

  

strPUE

 

5

BIN692-BIN693

4.3

 

10

BIN1354-BIN1355

43.5

−25.93**

4.3

  

PUEg

 

1

BIN28-BIN29

23.9

 

8

BIN1163-BIN1164

106.4

−8.42**

5.4

  

PTE

qPTE1-2

1

BIN160-BIN161

140.7

qPTE2, qPHI2

2

BIN310-BIN311

88.0

0.84

0.42

2.00* (aae4)

0.8

  

3

BIN451-BIN452

97.4

 

8

BIN1085-BIN1086

35.8

−2.34**

3.30

  
  

10

BIN1299-BIN1300

3.4

 

12

BIN1549-BIN1550

38.5

2.49**

3.72

  
  1. aPosition (cM) denotes the genetic distance in centiMorgan between the QTL and the first marker on the relevant chromosome.
  2. bAdditive by additive effect, a negative value means that recombinant alleles from the two parents increase the phenotypic score, a positive value means that two alleles from an identical parent increase the phenotypic score.
  3. cPhenotypic variation explained by an epistatic effect.
  4. dEpistasis by environment interaction, e1 and e2 represent low P in 2008 and 2009, e3 and e4 represent normal P in 2008 and 2009, respectively.
  5. ePhenotypic variation explained by an epistasis by environment interaction.
  6. * and **Indicate significance at P = 0.05 and P = 0.01, respectively.