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Table 4 Results of the QTL mapping procedure for each phenology trait

From: Genetic architecture of spring and autumn phenology in Salix

QTL

LG

Markera

P (cM)b

SI (cM)c

LOD

αd

PEVe

Bud burst in indoor conditions (BBI)

BBI.Ib

Ib

I_21om_sa (L29gr.164f)

150.9

9.5

7.86

0.001 gw

3.5

BBI.II.1

II♂-2

II_30_sa_pIII

16.9

23.5

4.54

0.005 cw

7.5

BBI.II.2

II♂-2

II_33_sa

42.1

17.5

4.22

0.007 cw

excl

BBI.II.3

II♂-2

II_35_sa (L12b.203f)

80.6

12

6.20

0.006 gw

7.1

BBI.VII

VII

Ro4b

64.4

48.5

3.04

0.032 cw

excl

BBI.IX

IX

IX_1_sa

56.6

10

3.60

0.010 cw

3.2

BBI.X.1

X

X-4

83.7

41

3.55

0.015 cw

excl

BBI.X.2

X

X-21_sa (L3gr.227f)

140.2

19.2

3.36

0.023 cw

2.8

BBI.A

A

XVI-13_sa

17.0

35

3.95

0.001 cw

6.2

BBI total sum of explained variance

30.3

Bud burst in field conditions year 2009 (BBF09)

BBF09.Ib

Ib

XVI_12_om_sa_pI

99.5

13

6.65

0.001 gw

10.3

BBF09.II

II♂-2

II_24_sa

59.9

74.5

2.78

0.038 cw

2.0

BBF09.IV

IV

IV_20_sa (L2gr.226f)

71.1

87.9

3.00

0.028 cw

excl

BBF09.VI

VI-1

VI_15_sa (L13y.371)

48.6

22.5

5.24

0.011 gw

3.7

BBF09.VII

VII

VII-3b

43.6

70.5

2.78

0.043 cw

excl

BBF09.X

X

X_19_sa

116.7

32.5

4.19

0.003 cw

1.4

BBF09.XIV

XIV♂

XIV_18_sa_pIII

85.9

17

5.89

0.003 gw

4.4

BBF09.XVIII

XVIII

XVIII_6_sa

14.6

18.5

3.25

0.018 cw

4.5

BBF09.A

A

XVI_13_sa

34.9

18.5

2.77

0.001 cw

excl

BBF09.B

B

SB945

27.7

42.3

2.28

0.049 cw

1.3

BBF09 total sum of explained variance

27.6

Bud burst in field conditions year 2010 (BBF10)

BBF10.Ia

Ia

SB331

170.3

36.3

4.60

0.005 cw

1.9

BBF10.Ib.1

Ib

I_51om_sa

107.2

28

3.78

0.022 cw

excl

BBF10.Ib.2

Ib

I-32_sa

215.5

71.5

3.63

0.026 cw

4.2

BBF10.II

II♂-2

R_41_sa_pI

20.9

17

13.32

0.001 gw

14.1

BBF10.VI.1

VI-1

VI-3d

8.3

15.5

7.96

0.005 gw

7.3

BBF10.VI.2

VI-1

SB496

61.8

13

4.04

0.005 cw

excl

BBF10.VII

VII

Ph18

52.2

28.5

4.78

0.002 cw

1.0

BBF10.VIII.1

VIII-2

VIII_3_sa

32.7

29.3

4.75

0.001 cw

5.6

BBF10.VIII.2

VIII-3

VIII_20_sa_pI

41.4

33

6.72

0.025 gw

3.4

BBF10.IX.1

IX

IX_5_sa

36.9

47.5

3.79

0.008 cw

2.1

BBF10.IX.2

IX

R_60_sa_pI

78.2

23.9

3.73

0.011 cw

3.5

BBF10.X

X

Ph2

45.9

25

4.92

0.002 cw

3.2

BBF10.XIV

XIV♂

XIV-4_sa

82.3

19

3.38

0.019 cw

excl

BBF10.XVII

XVII

II_37_sa_pI

123.8

23.5

3.19

0.041 cw

excl

BBF10.XVIII

XVIII

XVIII_6_sa

14.6

28

4.34

0.002 cw

3.0

BBF10.A

A

XVI-13_sa

35.0

22

3.05

0.001 cw

3.9

BBF10 total sum of explained variance

53.2

Growth Cessation in indoor conditions (GCI)

GCI.Ib

Ib

XVII_8om_sa

182.8

34

3.93

0.015 cw

5.4

GCI.II

II♂-2

II_35_sa

84.8

14

4.70

0.006 cw

4.6

GCI.V

V♂

V-5_sa

52.8

24

5.22

0.028 gw

11.5

GCI total sum of explained variance

21.5

Growth cessation in field conditions year 2008 (GCF08)

GCF08.Ia

Ia

R_29_sa

42.0

37.5

3.38

0.043 cw

2.3

GCF08.Ib

Ib

XVI_18_sa

80.1

12.5

7.28

0.001 cw

6.1

GCF08.II

II♂-2

II_35_sa

84.8

8

10.54

0.002 gw

16.7

GCF08.III

III

III_8om_sa

24.8

36

2.91

0.045 cw

1.7

GCF08.V

V♂

V-5_sa

52.8

16

5.93

0.001 cw

5.5

GCF08.X

X

X-4

90.4

5.5

16.31

0.001 gw

2.3

GCF08.XIV

XIV♂

XIV-4_sa

82.3

14

4.42

0.005 cw

2.8

GCF08.XVIII

XVIII

XVII_9om_sa_pI

43.9

47

2.83

0.043 cw

3.5

GCF08 total sum of explained variance

40.9

Growth cessation in field conditions year 2009 (GCF09)

GCF09.Ib

Ib

XVI_18_sa

80.2

14.5

4.75

0.004 cw

4.9

GCF09.II.1

II♂-1

II-Ib_pI

11.0

26

4.02

0.001 cw

7.0

GCF09.II.2

II♂-2

II_33_sa

43.1

17

4.82

0.004 cw

2.4

GCF09.II.3

II♂-2

II_35_sa

84.8

13

6.15

0.001 cw

6.2

GCF09.III

III

III-4_sa

23.8

29

2.95

0.047 cw

3.2

GCF09.V

V♂

V_5_sa

52.8

55

3.15

0.032 cw

1.2

GCF09.IX

IX

IX_8_sa

75.2

22.9

3.82

0.007 cw

4.2

GCF09.X

X

X-4

91.4

5.5

8.55

0.002 gw

10.7

GCF09.XIV

XIV♂

XIV-4_sa

82.3

7.5

5.50

0.001 cw

1.4

GCF09.XVIII

XVIII

XVIII_8_sa

39.7

51.5

2.88

0.042 cw

2.1

GCF09.Ib × GCF09.XVIII

     

5.8

GCF total sum of explained variance

49.1

Leaf senescence in field conditions year 2009 (LSF09)

LSF09.Ib

Ib

SB265

219.5

23

4.34

0.007 cw

1.6

LSF09.II

II♂-2

II_35_sa

84.8

4

32.11

0.001 gw

34.2

LSF09.III

III

III-14_sa

87.1

36

3.57

0.018 cw

excl

LSF09.IV

IV

Ro11

21.6

38

3.0

0.030 cw

excl

LSF09.VI.1

VI-1

VI-3d

4.3

10.5

3.32

0.023 cw

1.2

LSF09.VI.2

VI-2

Sa_con27_PopI

8.4

10.5

8.11

0.001 gw

3.7

LSF09.VII

VII

VII_1_sa

1.0

6

6.18

0.001 gw

4.3

LSF09.VIII.1

VIII-2

VIII_3_sa

27.7

23

3.30

0.005 cw

1.6

LSF09.VIII.2

VIII-3

VIII_5_sa

4.0

15.5

7.55

0.001 gw

5.6

LSF09.X

X

X-4

88.4

6.5

20.49

0.001 gw

2.2

LSF09.XI

XI

R_52_sa

4.5

91

3.14

0.021 cw

1.1

LSF09.XIV

XIV ♀

XIV-12_sa

30.0

34.7

2.47

0.030 cw

1.0

LSF09 total sum of explained variance

56.5

Leaf senescence in field conditions year 2010 (LSF 2010)

LSF10.II

II♂-2

II-12_sa

89.6

5.5

16.89

0.001gw

19.3

LSF10.III

III

III-18_sa

118.6

15.5

6.35

0.003 gw

6.0

LSF10.IV

IV

Ph30

95.3

30.9

2.88

0.034 cw

2.3

LSF10.V

V♂

V_10_sa

59.4

28.5

3.64

0.005 cw

5.0

LSF10.VI

VI-1

VI-3d

4.3

12.5

2.94

0.049 cw

1.8

LSF10.VII

VII

VII_1_sa

1.0

26

2.73

0.047 cw

1.4

LSF10.VIII

VIII-3

VIII_5_sa

4.0

45.5

2.91

0.002 cw

1.8

LSF10.X

X

X-4

88.4

8.5

10.49

0.001 gw

1.8

LSF10.XII

XII

XII-4d

63.7

45.5

3.22

0.016 cw

1.2

LSF10.XIV.1

XIV♀

XIV-9_sa

22.8

20

6.73

0.001 gw

3.2

LSF10.XIV.2

XIV♂

XIV-14_sa

135.8

45.3

4.60

0.030 gw

excl

LSF10.B

B

VI_22_sa

12.0

41.5

4.51

0.037 gw

excl

LSF10 total sum of explained variance

43.8

  1. aThe closest SNP marker to the QTL peak position, also used in multiple QTL mapping, and in mixed model and variance components analyses. When the closest marker to peak position was not a SNP, the AFLP marker is reported in brackets. bQTL position on the S1 linkage map [35]. cHeuristic support interval determined as a 1.5-unit drop off on either side of the local LOD score peak. dProbability for the null hypothesis of no QTL obtained after 5,000 permutations. ePercentage of variance explained by the QTL or by the QTL × QTL interaction estimated by variance components analysis. gw Genome-wide, significant QTL. cw Chromosome-wide, suggestive QTL. excl QTL excluded from the complete model following a backward selection procedure at a test level of 0.05 (see Methods for details).
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BMC Plant Biology

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