Comparative Phylogeography of Ethiopian anurans: impact of the Great Rift Valley and Pleistocene climate change

Freilich, Xenia; Anadón, José D.; Bukala, Jolanta; Calderon, Ordaliza; Chakraborty, Ronveer; Boissinot, Stéphane

doi:10.1186/s12862-016-0774-1

BMC Ecology and Evolution

Table 3 Summary statistics of diversity and differentiation for mitochondrial and nuclear genes

From: Comparative Phylogeography of Ethiopian anurans: impact of the Great Rift Valley and Pleistocene climate change

Ametia sp.
	ND2		Rag-1		Tyr		BDNF
	West	East	West	East	West	East	West	East
N	12	19	14	28	22	32	24	26
S	13	24	2	2	3	3	1	1
Π	0.239	0.399	0.085	0.105	0.108	0.074	0.07	0.026
θ	0.447	0.715	0.08	0.065	0.152	0.138	0.048	0.047
Tajima’s D	−0.213	−1.723	0.179	1.268	−0.749	−1.079	−0.741	0.363
Fu’s F	1.885	0.297	1.475	0.987	−0.271	−1.225	−0.381	0.394
F _st	0.761		0.449		0.646		0.176
Ptychadena cooperi
	COI		CXCR4		NCX1		Rag-1		Tyr
	West	East	West	East	West	East	West	East	West	East
N	21	10	60	26	62	22	62	16	62	24
S	3	15	4	2	4	1	3	1	2	5
Π	0.182	2.518	0.143	0.065	0.033	0.016	0.031	0.049	0.158	0.464
θ	0.339	1.907	0.192	0.117	0.150	0.048	0.152	0.119	0.129	0.405
Tajima’s D	−1.217	1.475	−0.558	−0.960	−1.684	−1.162	−1.576	−1.162	0.381	0.427
Fu’s F	−1.770	9.345	−1.176	−1.046	−2.975	−0.957	−3.984	−0.700	0.591	−1.672
F _st	0.478		0.712		0.001		0.942		0.275
Ptychadena cf.neumanni 2
	COI		CXCR4		NCX1		Rag-1		Tyr
	West	East	West	East	West	East	West	East	West	East
N	36	24	80	62	76	54	64	60	78	62
S	8	9	3	7	3	5	7	14	3	10
Π	0.307	0.447	0.032	0.111	0.064	0.667	0.196	0.865	0.320	1.006
θ	0.694	0.867	0.135	0.381	0.102	0.193	0.327	0.629	0.216	0.710
Tajima’s D	−1.625	−1.588	−1.416	−1.859	−0.708	−1.533	−1.014	1.103	0.910	1.150
Fu’s F	−1.896	−3.562	0.021	−4.412	−1.185	−5.661	−0.230	1.386	−0.011	−1.157
F _st	0.793		0.039		0.016		0.274		0.555
Leptopelis gramineus
	COI		Rag-2		NCX1		Rag-1		Tyr		BDNF
	West	East	West	East	West	East	West	East	West	East	West	East
N	9	16	18	50	18	48	18	50	18	40	18	50
S	18	68	4	23	1	10	8	19	7	15	3	5
Π	1.275	4.118	0.252	0.463	0.02	0.269	0.279	0.361	0.353	0.511	0.149	0.121
θ	1.299	4.195	0.205	1.019	0.053	0.407	0.333	0.605	0.458	0.851	0.19	0.279
Tajima’s D (East = Arsi)	−0.267	−0.585	0.676	−1.232	−1.165	−1.524*	−0.565	−1.209	−1.042	−0.278	−0.591	−0.964
Fu’s F (East = Arsi)	−2.843	−1.987	−0.362	−4.967*	−0.794	−2.113	0.444	−4.455*	−1.584	−5.203*	−0.964	−2.707*
F _st	0.537		0.125		0.077		0.561		0.353		0.008
Ptychadena erlangeri
	COI		CXCR4		NCX1		Rag-1		Tyr
	West	East	West	East	West	East	West	East	West	East
N	28	8	68	20	60	18	68	16	70	16
S	40	7	15	5	7	0	15	11	29	11
Π	2.024	0.503	0.366	0.269	0.104	NA	0.493	0.625	1.261	0.743
θ	3.790	0.690	0.794	0.38	0.266	NA	0.690	0.695	2.048	0.730
Tajima’s D	−1.740	−1.309	−1.634	−0.965	−1.561	NA	−0.832	−0.378	−1.221	0.068
Fu’s F	−0.039	−2.317	−12.096	−2.94	−5.153	NA	−5.004	−1.501	−27.296	−1.120
F _st	0.029		0.055		0.032		0.029		0.109
Ptychadena cf. neumanni 1
	COI		CXCR4		NCX1		Rag-1		Tyr
	West	East	West	East	West	East	West	East	West	East
N	49		126		114		118		122
S	8		9		5		12		20
Π	0.322		0.253		0.121		0.264		0.859
θ	0.645		0.372		0.166		0.575		1.348
Tajima’s D	−1.371		−0.775		−0.567		−1.426		−1.024
Fu’s F	1.073		−2.142		−2.409		−6.391		−12.296
Tomopterna kachowskii
	COI		SLC8A3		NCX1		Rag-1		BDNF
	West	East	West	East	West	East	West	East	West	East
N	21	15	50	30	44	30	46	28	42	30
S	16	22	5	2	9	9	8	6	4	3
Π	1.062	1.135	0.151	0.042	0.231	0.193	0.454	0.358	0.215	0.214
Θ	0.884	1.401	0.299	0.109	0.448	0.287	0.462	0.325	0.204	0.168
Tajima’s D	−1.257	−2.176 *	−1.2006	−1.2555	−1.3893	−1.0164	−0.053	0.2998	0.1256	0.6543
Fu’s F	0.358	−0.697	−1.661	−1.021	−0.976	−1.142	−3.341	−1.995	0.003	1.002
F _st	−0.017		0.109		0.001		−0.028		−0.015

N number of individuals, S number of SNPs, Π nucleotide diversity, θ Waterson’s estimator of diversity. Values of Tajima’s D and Fu’s F that are significantly different from 0 are indicated with *

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