<p><sup><b>1</b></sup>Ancestral nodes for rooting were median vectors (MV) corresponding to the basal node identified in the Bayesian tree (<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0136329#pone.0136329.g003" target="_blank">Fig 3</a>) or the one immediately interior to the descendent haplotypes, or were the sampled haplotype immediately interior to the descendent haplotypes.</p><p><sup><b>2</b></sup>Colors correspond to those in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0136329#pone.0136329.g006" target="_blank">Fig 6</a>.</p><p>Average (and standard deviation, SD) numbers of mutations separating descendent haplotypes from ancestral nodes (rho) and corresponding estimates of time to m...
<p>N: the number of haplotypes in each box. Diagonal (bold): within haplogroup percentage genetic di...
<p>The effective size (<i>N<sub>e</sub></i>) of the populations evolved is given in the top row of t...
<p>The size of the circles is proportional to the frequency of each haplotype. Haplotypes are connec...
<p>The number of non-synonymous (top), synonymous (middle) and non-coding (bottom) mutations were pl...
<p>The haplotype network reconstruction takes into account missing data and gap so the inferred numb...
Manhattan plots (panel A, D) show negative log10 transformed p-values from CMH test contrasting the ...
TMRCA (kyr) in generations using a mutation rate of 1% × 10per year. The tree shows the ancestral di...
<p>Ancestral genomic mutation rates are shown as squares, evolved mutation rates at generation 3000 ...
a<p>Genomic coordinates in hg19 assembly. The genome was simply partitioned into nonoverlapping 10 k...
<p>(A) Box plots of heterozygosity measured in 5000 100 kb windows for each sample. (B) Reconstructi...
a<p>The total number of defining variants for a single founding haplogroup (H'grp) was used in each ...
<p>A. Simulation results of diversity measurements for derived and ancestral alleles (N: 100, mutati...
This thesis consists of three chapters on different topics. Chapter 1: We demonstrate the advantage...
<p>Significant P values from the Chi-square analyses for the present to 10% of total time (“recent” ...
<p>Bayesian estimation of divergence times among lineages of <i>Acanthoscelides obtectus</i> based o...
<p>N: the number of haplotypes in each box. Diagonal (bold): within haplogroup percentage genetic di...
<p>The effective size (<i>N<sub>e</sub></i>) of the populations evolved is given in the top row of t...
<p>The size of the circles is proportional to the frequency of each haplotype. Haplotypes are connec...
<p>The number of non-synonymous (top), synonymous (middle) and non-coding (bottom) mutations were pl...
<p>The haplotype network reconstruction takes into account missing data and gap so the inferred numb...
Manhattan plots (panel A, D) show negative log10 transformed p-values from CMH test contrasting the ...
TMRCA (kyr) in generations using a mutation rate of 1% × 10per year. The tree shows the ancestral di...
<p>Ancestral genomic mutation rates are shown as squares, evolved mutation rates at generation 3000 ...
a<p>Genomic coordinates in hg19 assembly. The genome was simply partitioned into nonoverlapping 10 k...
<p>(A) Box plots of heterozygosity measured in 5000 100 kb windows for each sample. (B) Reconstructi...
a<p>The total number of defining variants for a single founding haplogroup (H'grp) was used in each ...
<p>A. Simulation results of diversity measurements for derived and ancestral alleles (N: 100, mutati...
This thesis consists of three chapters on different topics. Chapter 1: We demonstrate the advantage...
<p>Significant P values from the Chi-square analyses for the present to 10% of total time (“recent” ...
<p>Bayesian estimation of divergence times among lineages of <i>Acanthoscelides obtectus</i> based o...
<p>N: the number of haplotypes in each box. Diagonal (bold): within haplogroup percentage genetic di...
<p>The effective size (<i>N<sub>e</sub></i>) of the populations evolved is given in the top row of t...
<p>The size of the circles is proportional to the frequency of each haplotype. Haplotypes are connec...