Table 3.
Results of demographic analyses performed with various methods.
| MD | W-H | Taj. D | Fu's F | FLUCTUATE | LAMARC | SWEEP-BOTT | |
| Cyt b | |||||||
| T. bernacchi | θi = 0 (0–0.7), θf = 550 (0.97–3890) | θi = 0.21, θf = 2.5 | -1.8 * | -7.7 ** | 3969 (s.d. 199)‡ | 1008 (36–1974) | -11.9 vs.0 ** |
| T. bernacchi (Ross Sea) | θi = 0 (0–0.45), θf = 0.356 (0–2365) | θi = 0.0001, θf = 19. | -2.18 ** | -8.11** | 10000 (s.d. 1670) ‡ | 4454 (3575–5625) | -10.57 vs. 0 ** |
| T. penelli | θi = 0.1 (0–0.34), θf = 0.141 (0–776) | θi = 0, θf = 3.8 | -1.31 | -2.29 ** | 5717 (s.d. 745) ‡ | 2246 (16–4064) | -2.94 vs. 0.56 ** |
| P. borchgrevinki | θi = 0 (0–1.5), θf = 2110 (15.8–7666) | θi = 0, θf = 15.1 | -1.95 ** | -19.04 ** | 8350 (s.d. 135) ‡ | 4407 (3158–4981) | NA |
| T. newnesi | θi = 0.005 (0–2.1), θf = 6.58 (3–1645) | θi = 0, θf = 5.2 | -0.83 | -7.81 * | 889 (s.d. 116) ‡ | 482 (180–696) | NA |
| S7 | |||||||
| T. bernacchi | θi = 0 (0–0.5), θf = 552 (1.3–3678) ** | θi = 0, θf = 2.6 | -1.21 | -3.95 | 1587 (s.d. 156) | -16.4 vs. 0 ** | |
| T. bernacchi (Ross Sea) | θi = 0 (0–0.6), θf = 492 (1–3406)** | θi = 0, θf = 2.3 | -0.88 | -2.16 | 1387 (s.d. 191) ‡ | -10.4 vs. -7.3 * | |
| T. penelli | θi = 0.004 (0–0.7), θf = 1.354 (0.1–4081) | θi = 0, θf = 1.0 | -1.15 | -2.88 | 1813 (s.d. 274) ‡ | -22.02 vs. 0 ** | |
| P. borchgrevinki | θi = 0 (0–0.8), θf = 33.1 (5.6–6823) | θi = 0, θf = 2.38 | -0.15 | -2.77 | 1013 (s.d. 151) ‡ | NA | |
| T. newnesi | θi = 0.006 (0–7.8), θf = 4.08 (1.3–29)* | θi = 11.6, θf = 0 | 2.09* | 3.97 | 33 (s.d. 86) | -26.1 vs. 24.2 |
For the Mismatch distribution (MD) and Wakeley and Hey's (W-H) methods, we indicate the pre- (θi) and post- (θf) expansion population parameters. Significant departures from expectation under the sudden expansion model of MD are indicated with asterisks (* means P < 0.05, ** < 0.01). Tajima's D and Fu's Fs are indicated with their significance as above (in the latter case, * stands for P < 0.02 and ** for < 0.004). ML values of growth parameters estimated separately for each locus in FLUCTUATE are noted together with their standard deviation in parentheses. ‡ denotes cases where the zero growth value were excluded from the the 95% C.I. We further indicate the ML estimates of growth parameters for joined dataset as estimated by LAMARC together with 95% C.I. Finally, we also indicate the Log Likelihood values of no-founder and bottleneck models of Galtier et al. as estimated by SWEEP-BOTTLENECK software. Asterisks denote the significance of the LRT test as above. NA denotes cases, where this method was not applicable.