Fig. 4: Patterns of long-range linkage disequilibrium around the candidate flatwing locus at three time points of an evolutionary time-series. | Nature Communications

Fig. 4: Patterns of long-range linkage disequilibrium around the candidate flatwing locus at three time points of an evolutionary time-series.

From: Temporal genomics in Hawaiian crickets reveals compensatory intragenomic coadaptation during adaptive evolution

Fig. 4

a X chromosome Manhattan plot highlighting the flatwing locus and approximate location of doublesex. Shading indicates the extent of the candidate flatwing locus. Two-sided Fisher’s Exact tests were used to calculate P-values. The horizontal dashed line indicates the FDR-adjusted significance threshold for multiple comparisons. Statistical details and source data are provided in Supplementary Data 4. b Patterns of haplotype sharing across three-time points with an Australian control group suggesting extensive long-range haplotype sharing. Rows and columns represent different individuals and SNPs respectively. SNP variants are represented as different colours. Six SNP-abundant contigs in this region and their genomic positions are shown above the panel. The positions of genes listed in the main text are indicated by black arrows. c–e. Patterns of linkage disequilibrium along the candidate flatwing region consistent with a hard selective sweep involving flatwing in the years (c) 2012, (d) 2017, (e) 2018. f Linkage disequilibrium along the same region in the Australian control group. Each contiguous block in the LD pattern corresponds to a contig to avoid any visual bias introduced by gaps in the genome assembly.

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