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. 2024 Apr 30;36(10):4109–4131. doi: 10.1093/plcell/koae130

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© The Author(s) 2024. Published by Oxford University Press on behalf of American Society of Plant Biologists.

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 4. — Analyses of gene family evolution and adaptive sequence evolution linked to large-scale rearrangements between T. fasciculata and T. leiboldiana.A) Scatterplot: composition of per-species gene counts among orthogroups. Upper histogram: distribution of per-orthogroup gene count in T. leiboldiana. Lower histogram: distribution of per-orthogroup gene count in T. fasciculata. B) Density plot showing the distribution of d_N/d_S values of one-to-one orthologs across non-rearranged scaffolds (gray profile) and scaffold 14 in T. leiboldiana (blue profile), which is the result of a fusion. C) Single-copy orthogroups with significant d_N/d_S values and their functions. Three uncharacterized genes that are excluded here are detailed in Supplementary Table S6. Infinite d_N/d_S values correspond to genes with d_S = 0 (no synonymous substitutions), an expected situation considering the low divergence of the 2 species. Further explanation about the biological significance of these functions can be found in Supplementary SI Note S7.