SNP genotyping reveals genetic diversity between cultivated landraces and contemporary varieties of tomato

BMC Genomics

Table 2 Estimation of genetic differentiation and distance

Predefined groups	Cherry	Fresh		Landraces		Processing	Wild
Cherry		0.16**		0.29**		0.12**	0.46 **
Fresh	0.04			0.11**		0.11**	0.60 **
Landraces	0.07	0.03				0.25**	0.69 **
Processing	0.03	0.02		0.06			0.58 **
Wild	0.25	0.34		0.39		0.32
Structure Groups	C1	F1	F2	L1	L2	P1	W1
C1		0.24**	0.24**	0.37**	0.33**	0.17**	0.49**
F1	0.07		0.11**	0.19**	0.17**	0.12**	0.62**
F2	0.06	0.03		0.24**	0.18**	0.16**	0.59**
L1	0.10	0.04	0.05		0.07**	0.28**	0.69**
L2	0.10	0.03	0.05	0.01		0.21**	0.69**
P1	0.04	0.03	0.04	0.07	0.05		0.57**
W1	0.26	0.36	0.33	0.38	0.39	0.31

Pairwise estimates of Fst and Nei’s standard genetic distance (Dst) between predefined groups or between groups of tomato accessions as inferred by the Bayesian analysis implemented in the Structure software.
Above the diagonal is the pairwise estimate of Fst, while Dst appears below the diagonal. Global Fst was 0.19 (P < 0.01) within the four tomato groups and 0.26 (P < 0.01) within the Structure groups. The P value for the estimated Fst was calculated using 10,000 permutations (**: P < 0.01).

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