Fig. 3: Selection signals for adaptation to high-altitude hypoxia of TC. | Communications Biology

Fig. 3: Selection signals for adaptation to high-altitude hypoxia of TC.

From: Analysis of genome and methylation changes in Chinese indigenous chickens over time provides insight into species conservation

Fig. 3: Selection signals for adaptation to high-altitude hypoxia of TC.

a Pairwise fixation index (FST) in 100-kb sliding windows across autosomes between TC and other chickens (upward coordinate axis: TC/BC; downward coordinate axis: TC/WC). The black horizontal dashed line corresponds to the genome-wide significance threshold (FST = 0.35 and 0.28 for TC/BC and TC/WC, respectively). Genes located in divergence regions and annotated by KEGG are indicated by their gene names. Overlapping candidate genes in two selected regions are marked in red. b–d Three extreme CDRs, which are found close to the genes in the pathways of “oxidation-reduction process” were enriched for sites on chromosomes 5 (b), 24 (c), and 8 (d). The pie charts represent the spectrum of allele frequencies at the non-synonymous loci of the focused genes C5H14ORF169, BCO2, VCAM1 and FRRS1 in TC and other chicken breeds. The variant allele is indicated in blue, whereas the reference allele in pink.

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