Supplementary Materials
Figure S1. Heatmap of pairwise FST among locations based on: a) neutral; and b) outlier loci.
Figure S2. The radial phylogram tree of the population genetic distances of Chiloscyllium punctatum among locations based on Euclidean method from: a) neutral loci; and b) outlier loci.
Figure S3. The correlation between genetic (Dgen) and geographical distances (Dgeo) of Chiloscyllium punctatum. Colours indicate the density of points in the scatterplot.
Figure S4. The estimation of the optimum number of clusters (K) within Chiloscyllium punctatum from the Indo-Malay region based on the Bayesian Information Criterion (BIC) using:
a) the snapclust function; and b) find.clusters function.
Figure S5. A three-dimensional Principal Coordinates Analysis ordination of Chiloscyllium punctatum from the Indo-Malay region based on outlier loci presented by P1, P2 and P3.
Figure S6. Discriminant Analysis of Principal Components of Chiloscyllium punctatum population from the Indo-Malay region based on outlier loci
Figure S7. Cluster plots of individual-based Bayesian proportions determined by STRUCTURE analysis with three options of the number of clusters (K = 3, 4 and 6) using outlier loci.
Table S1. Pairwise of genetic differentiation statistic based on GST parameter of Chiloscyllium punctatum between sampling locations. Abbreviations of location name refer to Table 2.
BIN PAH WKL WJV EJV PER PHU SAB EKL SUL
BIN
PAH 0.0075
WKL 0.0077 0.008
WJV 0.0111 0.013 0.0135
EJV 0.0175 0.0212 0.018 0.016 9 PER 0.0769 0.0796 0.0753 0.074
5 0.0724 PHU 0.2097 0.2158 0.2063 0.202
8 0.1921 0.0684 SAB 0.1578 0.164 0.1549 0.147
3 0.1262 0.1454 0.206 EKL 0.0471 0.0523 0.0466 0.040
9 0.0277 0.0802 0.1821 0.0931 SUL 0.2019 0.2098 0.1991 0.191
5 0.1652 0.1908 0.2376 0.1086 0.1258
Table S2. Pairwise of genetic differentiation statistic based on G’ST parameter of Chiloscyllium punctatum between sampling locations. Abbreviations of location name refer to Table 2.
BIN PAH WKL WJV EJV PER PHU SAB EKL SUL
BIN
PAH 0.0099
WKL 0.0102 0.0106
WJV 0.0149 0.0173 0.0182
EJV 0.0241 0.0289 0.0249 0.0236
PER 0.1083 0.1111 0.1065 0.106 0.1057 PHU 0.2891 0.2953 0.2854 0.2828 0.2746 0.1
SAB 0.237 0.2445 0.2336 0.2239 0.1966 0.2318 0.3215
EKL 0.0681 0.0751 0.0676 0.0599 0.0415 0.1232 0.2737 0.1527
SUL 0.3062 0.3156 0.303 0.2937 0.2598 0.3071 0.3743 0.1869 0.2084
Table S3. Pairwise of genetic differentiation statistic based on the true differentiation parameter (D) of Chiloscyllium punctatum between sampling locations. Abbreviations of location name refer to Table 2.
BIN PAH WKL WJV EJV PER PHU SAB EKL SUL
BIN
PAH 0.0001
WKL 0.0001 0.0001
WJV 0.0002 0.0003 0.0003
EJV 0.0007 0.001 0.0007 0.0007
PER 0.0063 0.0065 0.0062 0.0066 0.0075
PHU 0.0308 0.0312 0.0305 0.0309 0.0327 0.0076
SAB 0.0314 0.032 0.0312 0.0298 0.0263 0.0356 0.0558
EKL 0.0042 0.005 0.004 0.0034 0.0021 0.0122 0.0392 0.0203
SUL 0.0588 0.0605 0.0584 0.0564 0.0471 0.0643 0.0819 0.0258 0.0326