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Table 3 Estimates of nucleotide diversity, natural selection and neutrality tests of PkMSP1-42 (N = 83)

From: Genetic polymorphism and natural selection in the C-terminal 42 kDa region of merozoite surface protein-1 (MSP-1) among Plasmodium knowlesi samples from Malaysia

Domain S л (SD) K Hd (SD) dS dN dN-dS (SE) Z-test (P-value) Tajima’s D test Fu & Li’s test
dN = dS dN > dS dN < dS D F
42 kDa
 Entire (n = 83) 61 0.01079
(0.00033)
10.7338 0.970
(0.007)
0.030 0.004 -0.026
(0.006)
<0.0001 1.000 <0.0001 -0.49252 -0.03809 -0.26440
 Peninsular Malaysia (n = 58) 51 0.009119
(0.00031)
9.14156 0.956
(0.014)
0.029 0.002 -0.027
(0.006)
<0.0001 1.000 <0.0001 -0.68468 -1.11074 -1.13645
 Malaysian Borneo (n = 25) 31 0.01024
(0.00061)
10.18667 0.910
(0.030)
0.035 0.004 -0.031
(0.008)
<0.0001 1.000 <0.0001 0.75884 0.74035 0.87508
33 kDa
 Entire (n = 83) 46 0.01010
(0.00044)
7.89891 0.963
(0.008)
0.026 0.004 -0.022
(0.006)
<0.0001 1.000 <0.0001 -0.52113 0.55872 0.15928
 Peninsular Malaysia (n = 58) 37 0.00758
(0.00037)
5.92922 0.946
(0.015)
0.032 0.002 -0.030
(0.008)
<0.0001 1.000 <0.0001 -0.92293 -1.07888 -1.21884
 Malaysian Borneo (n = 25) 25 0.01082
(0.00062)
8.46000 0.893
(0.034)
0.034 0.005 -0.029
(0.009)
0.001 1.000 0.001 0.84595 0.96956 1.09115
19 kDa
 Entire (n = 83) 15 0.00779
(0.00064)
2.83485 0.916
(0.011)
0.046 0.002 -0.044
(0.016)
0.001 1.000 0.004 -0.33245 -1.37274 -1.18780
 Peninsular Malaysia (n = 58) 14 0.00708
(0.00067)
3.21234 0.906
(0.019)
0.068 0.002 -0.066
(0.024)
0.003 1.000 0.001 -0.02596 -0.81452 -0.64299
 Malaysian Borneo (n = 25) 6 0.00811
(0.00117)
1.72667 0.773
(0.048)
0.038 0.000 -0.038
(0.018)
0.001 1.000 <0.0001 -0.25913 -0.25602 -0.12303
  1. Abbreviations: N number of isolates, S number of segregating sites, K average number of pairwise nucleotide differences, Hd haplotype diversity, л observed average pairwise nucleotide diversity, dS nucleotide diversity of synonymous mutation per synonymous site, dN nucleotide diversity of non-synonymous mutation per non-synonymous site; dN, dS the difference of dN and dS with their standard deviation estimated by bootstrap with 1000 pseudoreplicates, SD standard deviation