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Table 2 Summary of allelic diversity applied separately to extracellular and intracellular domains of LysM-RLKs from wild tomatoes

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

  Gene region No. Seqs No. Sites Haplotypes π all sites (non,syn,silent) πa/πs S
LYK1
 chil v ochr Extracellular 17 v 1 699 8 0.0026 (0.0025, 0.0032, 0.0032) 0.79 8
Intracellular   1101 9 0.0028 (0.0011, 0.0079, 0.0078) 0.14 10
 chil v lyco Extracellular 17 v 1 699 8 0.0026 (0.0025, 0.0032, 0.0032) 0.80 8
Intracellular   1101 9 0.0028 (0.0011, 0.0079, 0.0078) 0.14 10
 peru v ochr Extracellular 17 v 1 699 12 0.0063 (0.0042, 0.0129, 0.0129) 0.33 21
Intracellular   1101 15 0.0043 (0.0018, 0.0117, 0.0116) 0.16 21
 peru v lyco Extracellular 17 v 1 699 12 0.0063 (0.0043, 0.0130, 0.0130) 0.33 21
Intracellular   1101 15 0.0043 (0.0018, 0.0117, 0.0116) 0.16 21
LYK3
 chil v ochr Extracellular 17 v 1 705 12 0.0046 (0.0005, 0.0176, 0.0176) 0.03 13
Intracellular   1203 16 0.0044 (0.0009, 0.0158, 0.0156) 0.06 21
 chil v lyco Extracellular 17 v 1 705 12 0.0046 (0.0005, 0.0155, 0.0155) 0.03 13
Intracellular   1203 16 0.0044 (0.0009, 0.0158, 0.0156) 0.06 21
 peru v ochr Extracellular 16 v 1 705 13 0.0086 (0.0008, 0.0328, 0.0328) 0.03 24
Intracellular   1203 14 0.0042 (0.0008, 0.0155, 0.0153) 0.05 25
 peru v lyco Extracellular 16 v 1 705 13 0.0088 (0.0009, 0.0349, 0.0349) 0.02 24
Intracellular   1203 14 0.0042 (0.0008, 0.0155, 0.0153) 0.05 25
LYK4
 chil v ochr Extracellular 15 v 1 801 15 0.0089 (0.0074, 0.0136, 0.0136) 0.54 18
Intracellular   1053 14 0.0074 (0.0053, 0.0139, 0.0137) 0.38 31
 chil v lyco Extracellular 15 v 1 801 15 0.0089 (0.0074, 0.0136, 0.0136) 0.54 18
Intracellular   1053 14 0.0074 (0.0053, 0.0139, 0.0137) 0.38 31
 peru v ochr Extracellular 16 v 1 801 16 0.0106 (0.0087, 0.0161, 0.0089) 0.54 41
Intracellular   1053 11 0.0075 (0.0029, 0.0236, 0.0233) 0.12 33
 peru v lyco Extracellular 16 v 1 801 16 0.0106 (0.0087, 0.0161, 0.0161) 0.54 41
Intracellular   1053 11 0.0075 (0.0029, 0.0236, 0.0233) 0.12 33
LYK6
 chil v ochr Extracellular 15 v 1 780 12 0.0146 (0.0132, 0.0198, 0.0198) 0.66 29
Intracellular   741 13 0.0150 (0.0105, 0.0265, 0.0265) 0.39 31
 chil v lyco Extracellular 15 v 1 780 12 0.0146 (0.0132, 0.0198, 0.0198) 0.66 29
Intracellular   741 13 0.0150 (0.0105, 0.0265, 0.0265) 0.39 31
 peru v ochr Extracellular 8 v 1 780 8 0.0152 (0.0149, 0.0166, 0.0166) 0.90 33
Intracellular   741 8 0.0188 (0.0127, 0.0397, 0.0397) 0.31 30
 peru v lyco Extracellular 8 v 1 780 8 0.0152 (0.0149, 0.0165, 0.0165) 0.90 33
Intracellular   741 8 0.0188 (0.0127, 0.0397, 0.0397) 0.31 30
LYK8
 chil v ochr Extracellular 13 v 1 771 9 0.0042 (0.0053, 0.0006, 0.0006) 9.1 9
Intracellular*   300 3 0.0022 (0.0000, 0.0116, 0.0116) 0.00 3
 peru v ochr Extracellular 17 v 1 771 13 0.0038 (0.0032, 0.0058, 0.0058) 0.55 16
Intracellular*   300 9 0.0047 (0.0035, 0.0101, 0.0101) 0.34 11
LYK9
 chil v ochr Extracellular 17 v 1 774 14 0.0086 (0.0068, 0.0145, 0.0145) 0.47 22
Intracellular   1038 14 0.0060 (0.0020, 0.0199, 0.0202) 0.10 22
 chil v lyco Extracellular 17 v 1 774 14 0.0086 (0.0068, 0.0145, 0.0145) 0.47 22
Intracellular   1038 14 0.0060 (0.0020, 0.0199, 0.0202) 0.10 22
 peru v ochr Extracellular 17 v 1 774 14 0.0053 (0.0040, 0.0092, 0.0092) 0.44 25
Intracellular   1038 17 0.0082 (0.0051, 0.0168, 0.0188) 0.30 32
 peru v lyco Extracellular 17 v 1 774 14 0.0053 (0.0040, 0.0092, 0.0092) 0.44 25
Intracellular   1038 17 0.0082 (0.0052, 0.0169, 0.0189) 0.30 32
  1. 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. 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 (πa/πs) was calculated for S. chilense and S. peruvianum. *The kinase domain of LYK8 is truncated