Table S1 Number of segregating AFLP fragments by primer combination for each of both crosses
(F1-2856 and F1-2872) for the species Picea glauca.
Primer
combinations
Total number of
polymorphic
fragmentsa
Primer
combinations
Total number of
polymorphic
fragments
EcoRI
primer
Cross
F1-2856
Cross
F1-2872
EcoRI
primer
MseI
primer
Cross
F1-2856
Cross
F1-2872
13
7
24
13
13
11
10
11
7
15
11
7
29
15
11
5
10
8
15
14
19
11
8
9
9
-
9
23
16
18
9
7
10
8
13
6
9
5
17
10
13
24
13
12
AAG
CAA
CAT
CTA
CTC
CTG
CTT
CAG
CAT
CGC
CTA
CTC
CTG
CTT
CCAA
CCAC
CCAG
CCAT
CCCA
CCCG
CCCT
CCGA
CCGC
CCGG
CCGT
CCTA
CCTC
CCTG
CCTT
6
10
11
9
22
3
26
18
12
13
7
24
21
12
12
10
14
14
9
10
11
16
11
11
19
22
-
10
6
25
21
25
19
25
17
17
14
11
17
17
23
16
29
34
MseI
primer
CAA
CAG
CTG
CCAC
CCAG
CCAT
CCCG
CCGA
CCGC
CCGG
CCGT
CCTA
CCTC
CCTG
CAA
ACT
CAC
CAG
CAT
CCT
CGC
CGT
CTC
CTG
CTT
CCAG
CCCG
CCCT
CCGA
CCGG
CCGT
CCTA
CCTC
CCTG
“-”, not tested.
ACA
ACG
Table S2 DNA amplification conditions from 35 SSR primer pairs previously
developed from various Picea species.
Amplification
SSR primer
conditions
pair
PCR programa
Referenceb
Tm
MgCl2
(mM)
PGL13
paGB3
SpAC1B8
EAC1D10
UAPgAG150(A)
UAPsTG25
SpAG2
pgGB5
paGB8
EAC1G05
EAC6F05
EATC2C01
EAC7F10
EAC6E09
EAC7H07
SpAC03
PAAC17
PAAC19
SpAC1H8
SpAGD1
SpAGH1
PAAC3
SpAC1F7
SpAGC1
SpL3AG1A4
SpAGG3
EAC6B01
EATC1D02A
pgGB7
EAC7F08
NACG07
EATC1E03
EAC1F04
UAPgCA91
PGL15
a
42
45
47
48
50
50
50
50
50
52
52
53
53
53
53
53
53
53
55
55
55
55
55
55
55
57
57
57
57
58
TD58
TD58
TD58
60
MicroTD
3.0
5.0
3.5
5.0
2.5
2.5
3.5
5.0
5.0
3.0
3.0
2.5
2.5
2.5
2.5
3.5
5.0
5.0
2.5
2.5
3.5
3.0
5.0
5.0
5.0
2.5
3.0
3.0
5.0
2.5
2.5
2.5
3.5
2.0
1.5
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
1
2
1
1
2
2
2
3
4
4
7
1
6
3
3
1
7
7
6
6
5
6
6
6
1
2
2
1
1
1
2
1
1
1
1
6
5
7
6
6
5
6
3
4
PCR programs as follows: (1) 4 min at 95°C for initial denaturation, 37 cycles of 45 s
at 94°C, 45 s at annealing temperature and 45 s at 72°C, followed by 10 min at 72°C;
(2) 5 min at 95°C, then 12 cycles of 45 s at 94°C, 45 s at 58°C (temperature decreasing by
0.5°C per cycle until 52°C) and 45 s at 72°C, followed by a second round of 27 cycles of 30
s at 94°C, 30 s at 52°C and 45 s at 72°C, followed by 10 min at 72°C; (3) 5 min at 94°C,
then 33 cycles of 30 s at 94°C, 30 s at 60°C and 30 s at 72°C, followed by 5 min at 72°C;
(4) 3 min at 94°C, then 2 cycles of 30 s at 94°C, 30 s at 60°C and 30 s at 72°C, followed by
25 cycles of 15 s at 94°C, 15 s at 54°C and 15 s at 72°C, followed by 3 min at 72°C.
b
1= Pfeiffer et al. (1997); 2= Scotti et al. (2000); 3= Hodgetts et al. (2001); 4= Rajora et al.
(2001); 5= Scotti et al. (2002a); 6= Scotti et al. (2002b); 7= Besnard et al. (2003).
Table S3 Number of markers genotyped for each of two crosses in Picea glauca.
Type of marker
Cross F1-2856
Cross F1-2872
Segregation
1:1 or
1:1:1:1
Segregation
3:1 or
1:2:1
Total
Segregation 1:1Segregation
or
3:1 or
1:1:1:1
1:2:1
Total
Shared
markers
AFLPs (% msda)
575 (7)
82 (6)
657 (13)
456 (8)
91 (3)
547 (11)
64
SSRs (% msda)
31b (1)
4 (0)
35 (1)
31c (0)
4 (0)
35 (0)
28
ESTPs (% msda)
46d (0)
4 (0)
50 (0)
40d (0)
3 (1)
43 (1)
35
Total (% msda)
652 (8)
90 (6)
742 (14)
527 (8)
98 (4)
625 (12)
127
% markers with distorted segregation, significant at P ≤ 0.01 / number of tests (Bonferroni correction).
Including 15 dominant SSR markers.
c Including 14 dominant SSR markers.
d Including 1 dominant ESTP marker.
a
b
Table S4 Primer sequences of Picea glauca used to amplify orthologous markers mapped in both Pseudotsuga menziesii and Pinus taeda.
Marker
GenBank
accession#
Forward primer
Reverse primer
Length of observed
PCR products b (bp)
estPg 137G09
-
CTACCATGAGCAGCTTTCTGTG
CCTCAGTACTCGTCTCCCTCAT
519
estPg 143D03
-
GTCAACTCGGGCTATGCTAATC
GCCCTCTGCTATGGCTACTG
766 or 783
estPg 152A04
-
CGATAACATGCAACCAGGTG
ACGAAGCATTCACGGGTAAC
634
estPg 200A01
-
GCTCACTTGAAGCTCTCTGAAC
GCAGAGACGGGAGAGCAGTA
420
estPg 6C12F
-
GGATCCAGTGTGATGCTCCT
ATTGCGATGGCAGACTAACC
1057c
a
DNA amplification was carried out by an initial denaturation of 4 min at 95 °C, then 40 cycles of 30 s at 95 °C, 30 s at 60 °C and 1 min at 72 °C, followed by 10
min at 72 °C.
b
Including intronic regions.
c
Not taking into account the primer pair length.