Fig. 5: Manhattan plots of N-mt and non-N-mt genes (red and black respectively) located on neo-W and neo-Z chromosomes (left and right columns). | Heredity

Fig. 5: Manhattan plots of N-mt and non-N-mt genes (red and black respectively) located on neo-W and neo-Z chromosomes (left and right columns).

From: Accelerated differentiation of neo-W nuclear-encoded mitochondrial genes between two climate-associated bird lineages signals potential co-evolution with mitogenomes

Fig. 5

Plots depict CODONML gene-wide dNdS estimates (top two rows), differences in CODONML dNdS rate estimates between EYR lineages (middle row, dNdS(C-I)), and –log(P) values for aBSREL tests for positive selection for the coastal and inland EYR lineages (bottom two rows). Zebra Finch chromosome 1A is used to provide reference position genome coordinates for each gene and the region of high between-lineage nuclear differentiation previously found in Morales et al. (2018) is indicated by the greyed region. Only gametologs that exhibit significant signals of positive selection intensification rather than relaxed purifying selection are labelled in all plots except the row depicting dNdS(C-I) (also see Supplementary Table 6 and Supplementary Fig. 4). For the row depicting dNdS(C-I), genes above the horizontal grey dotted line experience higher protein evolution in the coastal EYR lineage, and ones below the line higher in the inland lineage, with 1% outliers named.

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