Table 3.
Genetic diversity and results of mutation-drift equilibrium tests for each gene
| Genes [populations] | N | L | S | SI | SS | SA | A | Hd | θπ | θw | rho | D | D* | F* | FS | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| CguPIP1.1 [NW] | 58 | 673 | 0 | 0 | 0 | 0 | 1 | 0 | 0 | 0 | - | - | - | - | - | ||||
| CguPIP1.1 [SE] | 12 | 673 | 8 | 7 (3) | 1 | 0 | 2 | 0.53 | 4.24 | 2.65 | 0 | 2.40 | * | 1.38 | * | 1.87 | * | 7.51 | * |
| PquPIP2.1 | 32 | 513 | 16 | 10 | 6 | 0 | 7 | 0.79 | 4.63 | 3.97 | 5 | 0.56 | 1.57 | * | 1.46 | 2.76 | * | ||
| VsePIP2.1 | 46 | 627 | 10 | 7 (2) | 2 | 1 | 17 | 0.89 | 2.72 | 2.27 | 47 | 0.56 | 0.20 | 0.37 | - 7.48 | ||||
| EfaPIP1.1 [NW] | 104 | 459 | 12 | 10 (2) | 2 | 0 | 19 | 0.87 | 3.27 | 2.30 | 59 | 1.11 | * | 0.83 | 1.11 | * | - 4.20 | * | |
| EfaPIP1.1 [SE] | 50 | 459 | 12 | 9 (2) | 3 | 0 | 12 | 0.86 | 3.48 | 2.68 | 14 | 0.89 | 0.94 | 1.08 | - 1.00 | ||||
| EfaPIP1.2 [NW] | 144 | 521 | 9 | 6 (1) | 1 | 2 | 11 | 0.72 | 3.14 | 3.19 | 8 | - 0.55 | 1.29 | 0.98 | - 1.94 | ||||
| EfaPIP1.2 [SE] | 60 | 521 | 8 | 6 (1) | 1 | 2 | 11 | 0.63 | 2.61 | 3.29 | 18 | - 0.55 | 1.29 | * | 0.81 | - 4.41 | |||
| EfaPIP2.1 [NW] | 106 | 572 | 5 | 2 (1) | 1 | 2 | 6 | 0.73 | 2.52 | 1.67 | 6 | 1.07 | * | 1.03 | 1.23 | 0.88 | |||
| EfaPIP2.1 [SE] | 60 | 572 | 4 | 1 (1) | 1 | 2 | 4 | 0.66 | 2.20 | 1.50 | 0 | 1.02 | 0.98 | 1.16 | 1.73 | ||||
| EgrPIP2.1 | 194 | 671 | 14 | 9 (1) | 2 | 3 | 10 | 0.23 | 1.21 | 2.40 | 0 | - 1.24 | 1.53 | * | 0.58 | - 2.11 | |||
Legend: Analyses were performed taking recombination into account. N = sample size (number of sequences); L = amplicons length (base pairs); S = total number of segregating sites; SI = number of sites segregating in introns (number of indels in parentheses); SS = number of synonymous sites segregating in exons; SA = number of non-synonymous sites segregating in exons; A = number of observed haplotypes; Hd = Nei's (1987) gene diversity computed on haplotype frequencies; θπ, θw = estimates of population diversity parameter (4Neμ) from pairwise nucleotide differences and number of segregating sites, respectively (Tajima 1989); values multiplied by 1000; rho = population recombination parameter (4Ner); D, D*, F*, Fs: standard neutral model statistics (see Materials and Methods). * = significant and the P = 0.05 threshold level. n.b. some significant values of FS are numerically negative but lie above the upper limit of the neutral confidence interval (see Additional File 1: Supplementary Table S1); they are therefore "statistically positive".