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. 2017 Apr 11;15(4):e2001627. doi: 10.1371/journal.pbio.2001627

Fig 1. Scan for selective sweeps around cone opsins in Haida Gwaii threespine stickleback.

Fig 1

One of the strongest outlier regions for H12 and iHS in the genome of Haida Gwaii stickleback from 28 populations is centered on SWS2 and LWS, indicating a past selective sweep in this region. No such signature is found around the other two cone opsins. Grey dots show H12 (upper panel) and absolute iHS (lower panel) values for each SNP with a minor allele frequency (MAF) greater 5%, with top 0.1% outlier SNPs highlighted as red dots. The proportion of iHS-SNPs with a value greater than 2 per 10 kb window is shown as a blue line. The 99.9%-quantile boundaries are shown as red- and blue-dashed lines for SNPs and windows, respectively. Genomic coordinates in Mb based on an improved version of the stickleback reference genome [51] are given on the x-axis. The position of the four cone opsin genes is highlighted with black boxes and vertical dashed lines; grey boxes indicate other genes. Depicted values for H12, iHS, window-iHS, and 99.9%-quantile boundaries can be found in S1 Data.