Table 4.
Genetic diversity of flowering genes in Morocco and Iberia
Gene | Sequence length 1 | Genetic group 2 | Number of populations | Number of polymorphisms 3 | N H 3 | H S 3 | R S 3 | R P 3 | π silent | Haplogrups or truncations 4 | Haplogrup frequency (%) 4 |
---|---|---|---|---|---|---|---|---|---|---|---|
FRI |
3470 |
M |
20 |
24 |
16 |
0.049±0.011 |
1.18±0.03 |
0.092±0.022 |
0.0023 |
Yes |
5 |
|
|
IP |
178 |
87 |
97 |
0.058±0.009 |
1.24±0.03 |
0.181±0.023 |
0.0023 |
Yes |
12.2 |
|
|
IP-1 |
111 |
69 |
54 |
0.059±0.009 |
1.24±0.03 |
0.079±0.011 |
0.0023 |
Yes |
17.9 |
|
|
IP-2 |
29 |
26 |
14 |
0.029±0.007 |
1.13±0.02 |
0.028±0.010 |
0.0010 |
Yes |
6.5 |
|
|
IP-3 |
24 |
35 |
22 |
0.055±0.011 |
1.21±0.03 |
0.098±0.018 |
0.0026 |
No |
0 |
|
|
IP-4 |
14 |
19 |
7 |
0.046±0.011 |
1.15±0.03 |
0.032±0.014 |
0.0019 |
No |
0 |
FLC |
451 |
M |
20 |
4 |
5 |
0.126±0.058 |
1.31±0.13 |
0.314±0.135 |
0.0033 |
A |
100 |
|
|
IP |
181 |
8 |
18 |
0.104±0.035 |
1.38±0.11 |
0.378±0.106 |
0.0039 |
A |
100 |
|
|
IP-1 |
112 |
7 |
8 |
0.081±0.032 |
1.31±0.11 |
0.144±0.092 |
0.0032 |
A |
100 |
|
|
IP-2 |
31 |
3 |
3 |
0.073±0.040 |
1.22±0.12 |
0.064±0.041 |
0.0022 |
A |
100 |
|
|
IP-3 |
24 |
4 |
4 |
0.047±0.028 |
1.19±0.09 |
0.083±0.072 |
0.0025 |
A |
100 |
|
|
IP-4 |
14 |
2 |
3 |
0.049±0.039 |
1.14±0.10 |
0.106±0.078 |
0.0027 |
A |
100 |
CRY2 |
1529 |
M |
20 |
8 |
6 |
0.104±0.036 |
1.29±0.09 |
0.210±0.078 |
0.0229 |
A, B |
B=5 |
|
|
IP |
181 |
19 |
24 |
0.054±0.023 |
1.20±0.06 |
0.139±0.047 |
0.0145 |
A, B |
B=9.9 |
|
|
IP-1 |
112 |
10 |
8 |
0.037±0.021 |
1.13±0.05 |
0.029±0.011 |
0.0075 |
A, B |
B=3.6 |
|
|
IP-2 |
31 |
5 |
5 |
0.033±0.022 |
1.10±0.05 |
0.031±0.021 |
0.0052 |
A, B |
B=3.2 |
|
|
IP-3 |
24 |
7 |
8 |
0.052±0.024 |
1.18±0.07 |
0.162±0.064 |
0.0023 |
A |
100 |
|
|
IP-4 |
14 |
4 |
3 |
0.052±0.025 |
1.16±0.08 |
0.051±0.044 |
0.0229 |
A, B |
B=85.7 |
PHYC |
868 |
M |
19 |
6 |
7 |
0.065±0.033 |
1.24±0.11 |
0.121±0.059 |
0.0168 |
Ler, Col |
Col=5 |
|
|
IP |
160 |
18 |
34 |
0.062±0.024 |
1.23±0.06 |
0.141±0.036 |
0.0106 |
Ler, Col |
Col=7.4 |
|
|
IP-1 |
102 |
13 |
15 |
0.061±0.024 |
1.23±0.06 |
0.090±0.032 |
0.0092 |
Ler, Col |
Col=6.9 |
|
|
IP-2 |
30 |
3 |
4 |
0.026±0.018 |
1.09±0.05 |
0.032±0.029 |
0.0039 |
Ler |
100 |
|
|
IP-3 |
16 |
8 |
9 |
0.070±0.028 |
1.25±0.08 |
0.100±0.045 |
0.0158 |
Ler, Col |
Col=16.7 |
IP-4 | 12 | 5 | 6 | 0.062±0.028 | 1.20±0.11 | 0.035±0.024 | 0.0148 | Ler, Col | Col=14.3 |
For each gene, the following parameters are shown for Morocco, the Iberian Peninsula and the four Iberian genetic groups: number of polymorphisms, number of haplotypes (N H ), gene diversity (H S ), allelic richness (R S ), private allelic richness (R P ), silent nucleotide diversity (π silent ), and the type and frequency of major haplogroups or functional alleles. H S , R S and R P are mean values ± SE.
1: Alignment length of all sequences.
2: Genetic groups correspond to the four main Iberian groups detected with STRUCTURE; IP: Iberian Peninsula; M: Morocco.
3: Only polymorphisms that are not in complete LD are included.
4: Accessions are classified as functional and loss-of-function truncations for FRI[30] or as the two major functional haplogroups described for FLC, CRY2 and PHYC[54-56]. Frequencies are given for truncations and for the minor frequency haplogroups.