The evolutionary history of LysM-RLKs (LYKs/LYRs) in wild tomatoes

Table 1 Summary of allelic diversity and tests of neutrality of LysM-RLKs in wild tomatoes

	No. Seqs	No. Sites	Haplotypes	π all sites (non,syn,silent)	π_a/π_s	S	MK p-value (uncorrected)
LYK1		1881
chil v ochr	17 v 1		13	0.0027 (0.0016, 0.0059, 0.0059)	0.28	19	0.062
chil v lyco	17 v 1			0.0027 (0.0016, 0.0059, 0.0059)	0.28		0.026
peru v ochr	17 v 1		15	0.0049 (0.0026, 0.0118, 0.0117)	0.22	43	0.185
peru v lyco	17 v 1			0.0049 (0.0026, 0.0118, 0.0117)	0.22		0.146
LYK3		1992
chil v ochr	17 v 1		16	0.0046 (0.0011, 0.0160, 0.0159)	0.07	37	0.036
chil v lyco	17 v 1			0.0046 (0.0011, 0.0152, 0.0151)	0.07		0.718
peru v ochr	16 v 1		15	0.0056 (0.0008, 0.0211, 0.0209)	0.04	51	0.005
peru v lyco	16 v 1			0.0056 (0.0008, 0.0215, 0.0214)	0.04		0.822
LYK4		1938
chil v ochr	15 v 1		15	0.0080 (0.0061, 0.0138, 0.0137)	0.44	51	0.510
chil v lyco	15 v 1			0.0080 (0.0061, 0.0138, 0.0137)	0.44		0.760
peru v ochr	16 v 1		16	0.0089 (0.0054, 0.0202, 0.0201)	0.26	80	0.275
peru v lyco	16 v 1			0.0089 (0.0054, 0.0202, 0.0201)	0.26		0.336
LYK6		1599
chil v ochr	15 v 1		13	0.0151 (0.0119, 0.0246, 0.0246)	0.48	108	0.108
chil v lyco	15 v 1			0.0151 (0.0119, 0.0245, 0.0245)	0.48		0.069
peru v ochr	8 v 1		8	0.0161 (0.0135, 0.0244, 0.0244)	0.55	87	0.118
peru v lyco	8 v 1			0.0161 (0.0135, 0.0244, 0.0244)	0.55		0.064
LYK8		1149
chil v ochr	13 v 1		12	0.0048 (0.0044, 0.0064, 0.0064)	0.69	34	0.025
peru v ochr	17 v 1		16	0.0052 (0.0042, 0.0087, 0.0087)	0.47	55	0.026
LYK9		1890
chil v ochr	17 v 1		17	0.0073 (0.0042, 0.0174, 0.0176)	0.24	74	0.818
chil v lyco	17 v 1			0.0073 (0.0042, 0.0174, 0.0176)	0.24	73	0.604
peru v ochr	17 v 1		17	0.0068 (0.0045, 0.0135, 0.0146)	0.33	79	0.813
peru v lyco	17 v 1			0.0068 (0.0045, 0.0174, 0.0146)	0.33	77	0.649

Population samples were available for Solanum chilense (chil) and Solanum peruvianum (peru). Single allelic sequences from Solanum ochranthum (ochr) and Solanum lycopersicoides (lyco) were used for outgroup comparisons in the tests of neutrality. Haplotypes, the number of unique alleles in each population sample, apply to the first species listed in column 1, as do values for S, the number of segregating sites. The ratio of non-synonymous to synonymous average pairwise differences (π_a/π_s) was calculated for S. chilense and S. peruvianum. The McDonald-Kreitman test was applied to each pair of species listed in column 1. Uncorrected p-values for the McDonald-Kreitman analyses are reported, but following correction for multiple testing, none of the corrected p-values were below 5%

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