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. 2021 Dec 30;15(12):e0010110. doi: 10.1371/journal.pntd.0010110

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© 2021 Glans et al

This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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Fig 3 — RDAF distributions (A) and phylogenies (B) constructed from SNPs at the 5’-end of chromosome 36 (<1280 Kb, blue RDAF, top phylogeny), middle (1600–1780 Kb, grey RDAF, middle phylogeny) and 3’ end (>1800 Kb, orange RDAF, bottom phylogeny) showing the genetic relatedness of the 22 isolates with the L. tropica reference genome (“ref”). (A) Patterns of heterozygosity (blue), a LROH (grey) and homozygous similarity (orange) are seen in 14_01223, 07_00242 and 16_00964 (green), and high heterozygosity in 16_00075 and 14_642 (red). All isolates were disomic for chromosome 36, except 14_00642 that was trisomic. The putative TSS inferred from L. major is at 1.63 Mb (black), corresponding to a recombination breakpoint in 14_01223 (middle). 07_00242 (top) and 16_00964 (second) had breakpoint at an inferred strand-switch region (SSR) at 1.42 Mb. (B) The inferred genetically distinct groups are represented by the L. tropica reference (yellow area) and non-reference groups (purple area). (C) The homozygous (x-axis) and heterozygous (y-axis) SNPs/Kb for all 22 samples for the 0–1.28 Mb region (top), 1.60–1.78 region (middle) and >1.8 Mb region (bottom).