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Results: 5

1.
F <span style="font-variant: small-caps" class="small-caps">ig</span> . 2.

F ig . 2. From: Genomic Sequencing of Plasmodium falciparum Malaria Parasites from Senegal Reveals the Demographic History of the Population.

Demographic models. In the exponential growth model, population size starts increasing earlier than in the two-epoch model, and the current population size is larger.

Hsiao-Han Chang, et al. Mol Biol Evol. 2012 November;29(11):3427-3439.
2.
F <span style="font-variant: small-caps" class="small-caps">ig</span> . 5.

F ig . 5. From: Genomic Sequencing of Plasmodium falciparum Malaria Parasites from Senegal Reveals the Demographic History of the Population.

Derived site-frequency spectrum. The unfolded site-frequency spectrum was generated by using P. reichenowi as an outgroup. The G/C to A/T spectrum is more skewed toward low frequencies than the A/T to G/C spectrum, suggesting positive selection favoring C/G nucleotides or purifying selection against A/T nucleotides.

Hsiao-Han Chang, et al. Mol Biol Evol. 2012 November;29(11):3427-3439.
3.
F <span style="font-variant: small-caps" class="small-caps">ig</span> . 1.

F ig . 1. From: Genomic Sequencing of Plasmodium falciparum Malaria Parasites from Senegal Reveals the Demographic History of the Population.

Folded allele-frequency spectrum. Allele-frequency spectra of different classes of nucleotide sites all show excess of rare alleles. The neutral allele-frequency spectrum was obtained assuming a constant population size. The excess of rare alleles in the empirical spectrum indicates a population expansion in the past.

Hsiao-Han Chang, et al. Mol Biol Evol. 2012 November;29(11):3427-3439.
4.
F <span style="font-variant: small-caps" class="small-caps">ig.</span>  3.

F ig. 3. From: Genomic Sequencing of Plasmodium falciparum Malaria Parasites from Senegal Reveals the Demographic History of the Population.

Tajima’s D versus log(πN/πS). Tajima’s D and πN/πS do not always have the same pattern. By considering both together, genes under selection can more readily be identified. Orange dots show genes with both high Tajima’s D (P value < 0.05) and πN/πS (top 5%), red dots show genes with only high Tajima’s D, and blue dots represent genes with only high πN/πS.

Hsiao-Han Chang, et al. Mol Biol Evol. 2012 November;29(11):3427-3439.
5.
F <span style="font-variant: small-caps" class="small-caps">ig</span> . 4.

F ig . 4. From: Genomic Sequencing of Plasmodium falciparum Malaria Parasites from Senegal Reveals the Demographic History of the Population.

Manhattan plot of iHS P-values on a negative log10 scale. The dashed line indicates a Bonferroni threshold for significance. Dots are colored by chromosome, and their sizes are scaled according to P value. Several regions of recent positive selection are suggested by the iHS statistic, including areas near the known drug resistance loci pfcrt and pfmdr1.

Hsiao-Han Chang, et al. Mol Biol Evol. 2012 November;29(11):3427-3439.

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