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 / MseI
primer / Cross
F1-2856 / Cross
F1-2872 / EcoRI
primer / MseI primer / Cross
F1-2856 / Cross
F1-2872
ACA / CAA / 13 / - / AAG / CAA / 6 / -
CAG / 7 / - / CAT / 10 / -
CTG / 24 / - / CTA / 11 / -
CCAC / 13 / 9 / CTC / 9 / -
CCAG / - / 23 / CTG / 22 / -
CCAT / 13 / - / CTT / 3 / -
CCCG / 11 / 16 / ACG / CAG / 26 / 10
CCGA / - / 18 / CAT / 18 / -
CCGC / 10 / 9 / CGC / 12 / -
CCGG / 11 / 7 / CTA / 13 / -
CCGT / 7 / 10 / CTC / 7 / -
CCTA / - / 8 / CTG / 24 / 6
CCTC / 15 / - / CTT / 21 / -
CCTG / 11 / 13 / CCAA / 12 / 25
ACT / CAA / 7 / - / CCAC / 12 / 21
CAC / 29 / - / CCAG / 10 / 25
CAG / 15 / - / CCAT / 14 / 19
CAT / 11 / - / CCCA / 14 / 25
CCT / 5 / - / CCCG / 9 / 17
CGC / 10 / - / CCCT / 10 / 17
CGT / 8 / - / CCGA / - / 14
CTC / 15 / - / CCGC / 11 / 11
CTG / 14 / - / CCGG / 16 / 17
CTT / 19 / - / CCGT / 11 / 17
CCAG / - / 6 / CCTA / 11 / 23
CCCG / 11 / 9 / CCTC / 19 / 16
CCCT / - / 5 / CCTG / 22 / 29
CCGA / - / 17 / CCTT / - / 34
CCGG / 8 / 10
CCGT / 9 / 13
CCTA / 9 / 24
CCTC / - / 13
CCTG / - / 12

“-”, not tested.

Table S2 DNA amplification conditions from 35 SSR primer pairs previously developed from various Picea species.

SSR primer
pair / Amplification
conditions / PCR programa / Referenceb
Tm / MgCl2
(mM)
PGL13 / 42 / 3.0 / 1 / 4
paGB3 / 45 / 5.0 / 1 / 7
SpAC1B8 / 47 / 3.5 / 1 / 1
EAC1D10 / 48 / 5.0 / 1 / 6
UAPgAG150(A) / 50 / 2.5 / 1 / 3
UAPsTG25 / 50 / 2.5 / 1 / 3
SpAG2 / 50 / 3.5 / 1 / 1
pgGB5 / 50 / 5.0 / 1 / 7
paGB8 / 50 / 5.0 / 1 / 7
EAC1G05 / 52 / 3.0 / 1 / 6
EAC6F05 / 52 / 3.0 / 1 / 6
EATC2C01 / 53 / 2.5 / 1 / 5
EAC7F10 / 53 / 2.5 / 1 / 6
EAC6E09 / 53 / 2.5 / 1 / 6
EAC7H07 / 53 / 2.5 / 1 / 6
SpAC03 / 53 / 3.5 / 1 / 1
PAAC17 / 53 / 5.0 / 1 / 2
PAAC19 / 53 / 5.0 / 1 / 2
SpAC1H8 / 55 / 2.5 / 1 / 1
SpAGD1 / 55 / 2.5 / 1 / 1
SpAGH1 / 55 / 3.5 / 1 / 1
PAAC3 / 55 / 3.0 / 1 / 2
SpAC1F7 / 55 / 5.0 / 1 / 1
SpAGC1 / 55 / 5.0 / 1 / 1
SpL3AG1A4 / 55 / 5.0 / 1 / 1
SpAGG3 / 57 / 2.5 / 1 / 1
EAC6B01 / 57 / 3.0 / 1 / 6
EATC1D02A / 57 / 3.0 / 2 / 5
pgGB7 / 57 / 5.0 / 1 / 7
EAC7F08 / 58 / 2.5 / 1 / 6
NACG07 / TD58 / 2.5 / 2 / 6
EATC1E03 / TD58 / 2.5 / 2 / 5
EAC1F04 / TD58 / 3.5 / 2 / 6
UAPgCA91 / 60 / 2.0 / 3 / 3
PGL15 / MicroTD / 1.5 / 4 / 4

a 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= Pfeifferet al.(1997); 2= Scottiet al.(2000); 3= Hodgettset al. (2001); 4= Rajoraet al.(2001); 5= Scottiet al.(2002a); 6= Scottiet al. (2002b); 7= Besnardet 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 / Shared markers
Segregation 1:1 or
1:1:1:1 / Segregation 3:1 or
1:2:1 / Total / Segregation 1:1 or
1:1:1:1 / Segregation 3:1 or
1:2:1 / Total
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

a % markers with distorted segregation, significant at P ≤ 0.01 / number of tests (Bonferroni correction).

bIncluding 15 dominant SSR markers.

cIncluding 14 dominant SSR markers.

d Including 1 dominant ESTP marker.

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.