GenAlEx

[…] the data [25]., genetic population structure within the james river (spring-spawning versus fall-spawning sturgeon) was evaluated using pairwise fst, a measure of genetic distance, as calculated in genalex 6.502 [26, 27]. f’st, a measure of genetic distance that is adjusted to the maximum value of fst for a given suite of markers [28, 29], was computed for the same pairwise comparison using […]

[…] k values 1, 2, 3, 4 and 5 (fig. s4). to further understand the distribution of genetic variation across geography, we calculated principal components in genodive 2.055 and principal coordinates in genalex 6.562, 63. pca analysis of both snps and microsatellites are shown in the main text (fig. 2) and principal coordinates in the supplement (fig. s5)., to test for contemporary gene flow, […]

[…] discovery rate of 0.1. the analysis was based on the three major groups of samples: nor, oddm and oddu., we analyzed fine-scale structure using spatial autocorrelation analysis [60] implemented in genalex 6.5 [44, 61]. this was based on a matrix of individual genetic distances [44] and a corresponding geographical distance matrix based on the waterway distance between samples (table 1). […]

[…] having identified separate groupings, here termed evolutionary lineages (i.e., potential species), using structure, we conducted a series analyses. genetic diversity indices were estimated in genalex version 6.5 (peakall and smouse, 2012), for each population in each presumed evolutionary lineage across all ssr loci. for each nssr locus, descriptive statistics were assessed by estimating […]

[…] species58., binary allelic diversity was measured as total number of inferred bands (total bands) and number of bands unique to a single population (private bands) and they were calculated using genalex 6.5. nei’s gene diversity index (h), shannon’s information index (i), and the percentage of polymorphic loci (ppl) were calculated using popgene59 and genalex 6.5. estimation of genetic […]