Recent demographic histories of temperate deciduous trees inferred from microsatellite markers

Cao, Yu; Zhang, Da-Yong; Zeng, Yan-Fei; Bai, Wei-Ning

doi:10.1186/s12862-021-01805-w

BMC Ecology and Evolution

Table 1 Comparison of population parameters estimated using MIGRAINE and VarEff

From: Recent demographic histories of temperate deciduous trees inferred from microsatellite markers

Populations (sample size)	Methods	p_GSM	θ	θ_anc	D = G × μ	N_ratio = θ/θ_anc	N (× 10⁴)	N_anc (× 10⁴)	T_years (kya)
Northeast Q. liaotungensis (139)	MIGRAINE	0.53 [0.45–0.60]	18.58 [13.55–27.93]	5.37 [2.07–9.11]	0.67 [0.25–1.80]	3.46 [1.74–8.16]	0.46 [0.34–0.70]	0.13 [0.05–0.23]	33.65 [12.55–89.75]
Northeast Q. liaotungensis (139)	VarEff		12.50	4.79	[0.20–0.40]	2.61	0.31	0.12	[10.00–20.00]
Northwest Q. liaotungensis (240)	MIGRAINE	0.58 [0.53–0.63]	21.47 [17.64–27.35]	2.48 [0.001–5.34]	1.32 [0.73–8.17]	8.67 [3.98–14,696.00]	0.54 [0.44–0.68]	0.06 [0.0003–0.13]	66.15 [36.30–40.845]
Northwest Q. liaotungensis (240)	VarEff		17.40	2.46	[0.30–0.40]	7.08	0.43	0.06	[15.00–20.00]
Q. mongolica (502)	MIGRAINE	0.62 [0.56–0.66]	20.88 [17.76–25.85]	3.52 [0.01–6.77]	1.19 [0.68–6.02]	5.93 [2.98–1314.00]	0.52 [0.44–0.65]	0.09 [0.0003–0.17]	59.45 [34.10–301.00]
Q. mongolica (502)	VarEff		12.23	3.24	[0.30–0.50]	3.78	0.31	0.08	[15.00–25.00]
J. cathayensis (596)	MIGRAINE	0.64 [0.60–0.68]	14.76 [12.41–17.60]	0.64 [0.02–4.08]	2.95 [1.06–9.72]	23.21 [3.58–569.60]	0.37 [0.31–0.44]	0.02 [0.0006–0.10]	88.41 [31.86–291.63]
J. cathayensis (596)	VarEff		17.44	1.11	[0.40–0.80]	15.72	0.44	0.03	[12.00–24.00]
J. mandshurica (399)	MIGRAINE	0.62 [0.56–0.66]	15.65 [12.69–20.46]	4.35 [0.82–8.50]	0.99 [0.29–3.36]	3.60 [1.81–17.41]	0.39 [0.32–0.51]	0.11 [0.02–0.21]	29.64 [8.61–168.20]
J. mandshurica (399)	VarEff		19.30	4.01	[0.30–0.60]	4.81	0.48	0.10	[9.00–18.00]
J. ailantifolia (107)	MIGRAINE	0.62 [0.56–0.66]	18.12 [14.02–24.39]	1.29 [0.13–5.01]	1.80 [0.68–5.08]	14.08 [3.67–141.50]	0.45 [0.35–0.61]	0.03 [0.003–0.13]	54.03 [20.28–152.25]
J. ailantifolia (107)	VarEff		19.75	3.41	[0.30–0.60]	5.79	0.49	0.09	[9.00–18.00]

The estimates of past and current population sizes and times in years (T_years) obtained by MIGRAINE and VarEff are converted with a fixed mutation rate of 10^–3 mutation per locus per generation and a generation time of 50 years for oaks, 30 years for Asian butternuts. The population size calculated by VarEff is median. θ, scaled current effective population size by mutation rate; θ_anc, scaled ancestor effective population size by mutation rate; N_ratio = θ/θ_anc; N, current effective population size (individual number); N_anc ancestor effective population size (individual number); G, time measured by generations; μ, mutation rate per locus per generation

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