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Rice

Table 3 Epistasis for traits related to salinity tolerance in an IR29/Hasawi RIL population in two different environments (E2 and E3)

From: Mapping QTLs using a novel source of salinity tolerance from Hasawi and their interaction with environments in rice

Chr 1

Position 1 (cM)

Marker interval at position 1

Chr 2

Position 2 (cM)

Marker interval at position 2

LOD

PVE (%)

AA × E2

AA × E3

TI

Epi

AA

QEI

Epi

AA

QEI

SL: Shoot length

 2

20

id2000096-id2007526

8

35

id8002194-id8001477

7.0

2.4

3.5

9.3

4.6

4.7

0.87

−0.87

C

SES

 5

0

id5007714-id5014589

11

0

id11002639-id11010335

6.3

4.3

2.0

7.8

7.2

0.6

−0.72

0.72

C

 6

145

id6001397-fd7

11

0

id11002639-id11010335

6.3

4.1

2.1

7.5

7.1

0.4

−0.72

0.72

C

FWsht: Shoot fresh weight

 1

40

id1007776-id1016633

2

65

fd12-id2013434

7.1

4.1

3.0

5.4

3.3

2.1

0.05

−0.05

B

 3

90

dd3000535-id3200001

6

155

fd7-fd13

7.0

3.2

3.7

8.6

3.8

4.8

−0.16

0.16

C

 3

115

id3200001-id3015703

7

65

id7004429-id7004442

5.8

3.1

2.6

7.8

4.0

3.7

0.12

−0.12

C

DWsht: Shoot dry weight

 1

35

id1007776-id1016633

2

80

id2001831-id2003094

6.8

1.0

5.8

3.0

0.4

2.6

−0.04

0.04

C

 2

65

fd12-id2013434

4

90

id4007444-id4008092

6.9

3.7

3.2

2.1

2.1

0.0

−0.04

0.04

B

 1

35

id1007776-id1016633

4

95

id4010238-id4007105

16.5

4.8

11.7

7.1

2.5

4.7

−0.07

0.07

C

 1

220

id1010609-id1016436

5

120

id5007536-id5005872

15.9

3.8

12.0

1.2

1.5

0.0

−0.07

0.07

B

 1

50

id1011535-id1024836

6

5

ud6000572-id6014475

55.2

29.1

26.1

5.6

5.6

0.0

−0.14

0.14

C

 2

80

id2001831-id2003094

6

5

ud6000572-id6014475

12.5

2.3

10.2

8.0

1.1

6.8

−0.06

0.06

C

 4

90

id4007444-id4008092

6

5

ud6000572-id6014475

14.5

3.3

11.1

8.1

1.6

6.5

−0.06

0.06

C

 5

120

id5007536-id5005872

6

5

ud6000572-id6014475

68.8

39.1

29.7

7.9

7.9

0.1

−0.16

0.16

C

 6

5

ud6000572-id6014475

6

20

id6003318-id6001524

19.1

5.2

13.8

4.8

3.9

0.9

−0.06

0.06

C

 1

145

id1002899-ud1000711

7

0

id7002260-id7001478

5.0

1.6

3.3

1.0

0.8

0.2

0.03

−0.03

C

 5

125

id5007536-id5005872

7

5

id7001478-id7002859

9.1

0.0

9.1

2.6

2.7

0.0

0.06

−0.06

C

 4

90

id4007444-id4008092

7

15

id7002859-id7002427

9.2

2.9

6.2

1.0

1.0

0.0

0.05

−0.05

C

 6

5

ud6000572-id6014475

7

60

id7003748-id7003359

6.6

3.8

2.7

5.1

1.6

3.5

−0.05

0.05

C

 4

90

id4007444-id4008092

8

70

id8007301-id8000240

7.9

2.0

5.9

1.2

1.0

0.2

0.04

−0.04

C

 6

5

ud6000572-id6014475

8

90

id8007301-id8000240

9.0

0.0

9.5

2.5

1.0

1.5

0.05

−0.05

C

 1

0

id1004348-id1001073

8

175

id8000240-id8005359

6.3

4.3

2.0

4.0

4.0

0.1

0.02

−0.02

B

 2

80

id2001831-id2003094

8

175

id8000240-id8005359

5.0

0.4

4.6

3.5

0.2

3.3

0.03

−0.03

C

 7

60

id7003748-id7003359

8

175

id8000240-id8005359

5.9

1.7

4.1

3.9

1.1

2.8

0.03

−0.03

C

 5

125

id5007536-id5005872

8

180

id8005359-id8006485

20.3

4.9

15.4

5.8

3.5

2.3

0.06

−0.06

C

 8

175

id8000240-id8005359

11

75

id11010335-id11008036

20.7

4.9

15.7

2.8

2.8

0.0

0.08

−0.08

C

 1

35

id1007776-id1016633

11

115

id11004215-id11001683

14.0

2.6

11.4

4.2

1.3

2.9

−0.06

0.06

C

 6

5

ud6000572-id6014475

11

120

id11002933-id11003556

53.7

22.7

31.0

14.1

5.9

8.1

−0.12

0.12

C

 7

10

id7001478-id7002859

11

120

id11002933-id11003556

8.0

0.0

8.6

5.0

1.1

3.9

−0.05

0.05

C

 6

5

ud6000572-id6014475

12

105

id12002728-id12001321

25.0

7.2

17.8

3.7

2.8

0.9

−0.09

0.09

C

  1. AA by E represents the estimated additive effect of epistatic QTLs and QTL × environment interactions (QEI) under two environments, respectively; its positive value indicates that IR29 has the positive allele and is just the opposite for negative values; its positive value indicates that two-loci genotypes are the same as those in the parent IR29 having positive effects, whereas the two-loci recombinants have negative effects (from Hasawi); PVE (epistatic QTLs), PVE (AA), and PVE (QEI) represent the PVE by the epistatic QTLs, additive/main-effect QTLs, and QTL × environment interactions, respectively. Epi Epistatic, TI: Type of interaction, A interaction between QTLs, B interaction between QTLs and background loci, C interaction between complementary loci
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