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. 2018 Oct 17;8(12):3865–3879. doi: 10.1534/g3.118.200585

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Copyright © 2018 Snoeck et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.

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- Maximum likelihood phylogenetic analysis of tetranychid single PLAT domain proteins. (A) Maximum likelihood phylogenetic analysis of the single PLAT domain proteins of Panonychus ulmi, Panonychus citri, Tetranychus evansi and Teteranychus urticae. Only bootstrapping values higher than 65 are shown. The scale bar represents 0.1 amino acid substitutions per site. T. urticae single PLAT domain protein expansions are indicated by green font and labeled Group I (&) and Group II (#). Information and accession numbers of the tetranychid single PLAT domain proteins can be found in Table S8 and File S3. Those proteins with the PFAM PLAT domain (PF01477) or belonging to the CATH/Gene3D PLAT/LH2 Superfamily (2.60.60.20) are indicated with a circle and an asterisk, respectively (B) Genomic distribution of Tetranychus urticae single PLAT domain protein genes is shown with lengths of vertical line segments corresponding to counts in a gene cluster; gene counts for the forward (+, orange) and reverse (−, blue) strand orientations. Clusters of single PLAT domain protein genes were calculated such that a given gene its count contributes to only one vertical line segment. Only intact single PLAT domain protein genes were included in the analysis. Genes of the expansions of Group I and II (see panel A) are marked with their respective symbol. The genome was concatenated from largest to smallest scaffolds for display, alternating scaffolds are indicated by shading.