<p>(A) Nucleotide diversity boxplot diagrams of putatively secreted and non-secreted protein-coding as well as house-keeping genes (<i>ef1-α</i>, <i>rpb1</i>, <i>gapdh</i> and ITS including <i>5.8S</i> rDNA) and non-coding regions. (B) Nucleotide diversity boxplot diagrams of sub-datasets of cluster 19A. 19A-L: left part of cluster 19A genes encoding secreted proteins (<i>um05294</i> – <i>um10555</i>); 19A-R right part of cluster 19A genes encoding secreted proteins (<i>um05305</i> – <i>um05319</i>); Dotted line: median; n: number of sequences per dataset. *: p≤0.05; **: p≤0.01 in Student's t-test.</p
<p>Diversity of dN and dS for each orthologous gene cluster was computed by averaging all pairwise e...
<p>Abbreviations are number of isolates examined (N), segregating sites (S), number of haplotypes (H...
<p>θ<sub><i>k</i></sub>, average number of nucleotide differences; θ<sub><i>H</i></sub>, haplotype d...
<p>(A) Genes are illustrated in the genomic gene order. Arrowheads below the graph indicate their re...
<p>In <b>A</b>, we plotted the observed levels of sequence diversity in 100 kb windows throughout th...
<p>The central boxes represent the middle three quarters of the data. The total number of samples in...
<p>(A) Genes and non-coding regions are illustrated in the genomic gene order. Arrows indicate their...
a<p>length of analyzed resequenced region (in kb);</p>b<p>population;</p>c<p>number of segregating s...
<p>Box plots indicate the posterior predictive distributions for each locus (1,000 replicates; horiz...
<p>Diversity indices for all samples including number of individuals (N), number of segregating site...
<p>Box-plots of global (a and b) and per population (c and d) haplotype (a and c) and nucleotide (b ...
<p>Where n = number of sequences, S = number of segregating sites, Hap = number of haplotypes, SE...
<p>(A) Correlation between 10 bp long dinucleotide patterns composed of one copy of each SS, WW, YY ...
<p>A sliding window of 50 base pairs is used, with an increment of 25 base pairs. Nucleotide diversi...
<p>Ha: number of haplotypes.</p><p>S: number of segregating sites.</p><p>π<sub>T</sub>: average numb...
<p>Diversity of dN and dS for each orthologous gene cluster was computed by averaging all pairwise e...
<p>Abbreviations are number of isolates examined (N), segregating sites (S), number of haplotypes (H...
<p>θ<sub><i>k</i></sub>, average number of nucleotide differences; θ<sub><i>H</i></sub>, haplotype d...
<p>(A) Genes are illustrated in the genomic gene order. Arrowheads below the graph indicate their re...
<p>In <b>A</b>, we plotted the observed levels of sequence diversity in 100 kb windows throughout th...
<p>The central boxes represent the middle three quarters of the data. The total number of samples in...
<p>(A) Genes and non-coding regions are illustrated in the genomic gene order. Arrows indicate their...
a<p>length of analyzed resequenced region (in kb);</p>b<p>population;</p>c<p>number of segregating s...
<p>Box plots indicate the posterior predictive distributions for each locus (1,000 replicates; horiz...
<p>Diversity indices for all samples including number of individuals (N), number of segregating site...
<p>Box-plots of global (a and b) and per population (c and d) haplotype (a and c) and nucleotide (b ...
<p>Where n = number of sequences, S = number of segregating sites, Hap = number of haplotypes, SE...
<p>(A) Correlation between 10 bp long dinucleotide patterns composed of one copy of each SS, WW, YY ...
<p>A sliding window of 50 base pairs is used, with an increment of 25 base pairs. Nucleotide diversi...
<p>Ha: number of haplotypes.</p><p>S: number of segregating sites.</p><p>π<sub>T</sub>: average numb...
<p>Diversity of dN and dS for each orthologous gene cluster was computed by averaging all pairwise e...
<p>Abbreviations are number of isolates examined (N), segregating sites (S), number of haplotypes (H...
<p>θ<sub><i>k</i></sub>, average number of nucleotide differences; θ<sub><i>H</i></sub>, haplotype d...