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Table 1 List of the location and characteristics of QTLs found using the three methods in P. mariana

From: The genomic architecture and association genetics of adaptive characters using a candidate SNP approach in boreal black spruce

Linkage group a

Trait

Year

Methodb

Site c

QTL

LOD threshold

 

Positiond

LOD score or P-valuee

PVE f

At linkage group scale

At genome-wide scale

1

growth

2007

IM

site#1

60-73

3.25

6.5

3.4 (2.9)

4.3 (3.8)

1

growth

2006

nIM

site#1

60-78

3.7

-

3.2 (2.8)

4.4 (3.9)

1

budset

2006

IM

site#1

68-73

2.87

7.9

3.3 (2.8)

4.4 (3.7)

1

budset

2007

IM

site#1

81-90

3.25

6.8

3.2 (2.6)

5.1 (3.9)

1

budset

2006

KW

site#2

90.00

****

-

-

-

1

budset

2007

IM

site#1

58-114

3.09

6.5

3.2 (2.8)

4.8 (3.5)

1

budset

2007

nIM

site#1

108-108

3.1

-

3.2 (2.8)

4.4 (3.9)

1

budset

2007

K-W

site#1

149.00

******

-

-

-

3

budset

2007

K-W

site#2

85.00

***

-

-

-

3

growth

2007

K-W

site#2

85.00

***

-

-

-

4

budset

2007

K-W

site#1

76.00

****

-

-

-

4

budset

2007

K-W

site#1

87.00

***

-

-

-

4

budset

2007

nIM

site#2

89-89

4.57

-

3.2 (2.8)

4.5 (4.2)

4

budset

2007

nIM

site#1

75-118

4.1

-

3.6 (2.8)

4.4 (3.9)

4

budset

2006

nIM

site#2

88-119

3.42

-

3.3 (2.7)

4.7 (4.1)

4

budset

2006

K-W

site#2

156.00

****

-

-

-

4

budset

2006

K-W

site#2

160.00

****

-

-

-

4

budset

2006

K-W

site#2

162.00

****

-

-

-

5

budset

2006

K-W

site#1

18.00

****

-

-

-

5

budset

2006

K-W

site#1

19.00

****

-

-

-

5

budset

2006

K-W

site#1

20.00

***

-

-

-

5

budset

2006

nIM

site#1

17-22

4.2

-

3.1 (2.8)

4.5 (4.1)

5

budset

2006

nIM

site #1

36-42

3.2

-

3.1 (2.8)

4.5 (4.1)

5

budset

2006

IM

site #1

34-68

4.47

5.3

4.3 (4.0)

4.5 (3.4)

5

budset

2006

IM

site #1

59-65

3.17

9.7

3.4 (2.9)

4.4 (3.7)

5

growth

2006

IM

site #1

111-129

3.55

7.8

3.4 (2.9)

5.1 (4.0)

5

budset

2006

K-W

site #2

131.00

***

-

-

-

5

budset

2006

K-W

site #1

131.00

***

-

-

-

5

budset

2007

IM

site #1

127-134

3.43

6.1

3.6 (3.0)

4.8 (3.5)

5

growth

2006

IM

site #1

131-142

3.2

7.6

3.5 (3.0)

4.5 (3.8)

5

budset

2006

nIM

site #2

142-142

2.7

-

3.0 (2.7)

4.7 (4.1)

5

growth

2007

IM

site #1

140-147

3.43

6.6

3.3 (2.9)

4.3 (3.8)

6

budset

2006

IM

site #2

0-15

2.99

11.3

3.0 (2.5)

4.2 (3.7)

6

budset

2006

IM

site #2

5-30

2.99

11.3

3.2 (2.7)

4.3 (3.9)

6

budset

2006

nIM

site #1

82-86

2.7

-

3.0 (2.5)

4.5 (4.1)

6

budset

2007

nIM

site #2

137-147

3.7

-

2.9 (2.4)

4.5 (4.2)

6

budset

2007

K-W

site #2

169.00

*****

-

-

-

6

budset

2007

K-W

site #2

170.00

****

-

-

-

7

budset

2006

nIM

site #2

11-16

2.8

-

3.0 (2.7)

4.7 (4.1)

7

growth

2006

IM

site #1

82-95

2.89

7.5

3.2 (2.7)

5.1 (4.0)

7

growth

2006

nIM

site #1

99-99

2.6

-

3.1 (2.6)

4.4 (3.9)

8

budset

2007

IM

site #2

9-15

2.99

10.8

3.1 (2.6)

4.2 (3.8)

8

budset

2007

IM

site #2

18-29

3.14

11.7

3.1 (2.8)

4.8 (4.1)

9

growth

2007

IM

site #2

62-70

2.95

12.3

3.0 (2.7)

5.3 (4.0)

10

budset

2006

K-W

site #1

9.00

***

-

-

-

10

budset

2006

K-W

site #1

20.00

***

-

-

-

10

budset

2007

nIM

site #1

99-104

3

-

3.3 (2.9)

4.4 (3.9)

11

budset

2007

IM

site #2

0-5

2.94

9.9

2.0 (1.6)

4.2 (3.8)

11

budset

2007

nIM

site #2

7-14

2.3

-

2.6 (2.1)

4.5 (4.2)

12

budset

2006

nIM

site #1

11-11

2.7

-

3.1 (2.7)

4.5 (4.1)

12

growth

2007

nIM

site #1

31-33

3.8

-

3.1 (2.8)

4.6 (3.9)

12

growth

2007

IM

site #1

37-48

3.22

8.2

3.1 (2.7)

4.3 (4.0)

12

budset

2006

IM

site #2

95-106

2.98

4

2.9 (2.5)

4.3 (3.9)

12

budset

2006

nIM

site #2

98-100

2.9

-

3.2 (2.8)

4.7 (4.1)

12

budset

2006

K-W

site #2

107.00

***

-

-

-

12

budset

2006

K-W

site #2

109.00

****

-

-

-

  1. a Linkage group according to Pavy et al. 2008.
  2. b Methods of QTL detection: nIM, non-parametric interval mapping; IM, interval mapping; K-W, Kruskal-Wallis test (see material and methods).
  3. c According to Figure 1 and Additional file 1: Table S1.
  4. d Position in cM according to Kosambi function.
  5. e p-value for the Kruskal-Wallis tests: *** > 0.995; **** > 0.999; ***** > 0.9995; ****** > 0.9999.
  6. f PVE: proportion of variance explained.
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