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. 2021 Feb 2;33(4):1016–1041. doi: 10.1093/plcell/koab026

Figure 4.

Figure 4

Phylogenetic relationship and centromeric clustering of Zepp-like elements. A, ML phylogeny of chlorophyte L1 LINE elements inferred using the LG+F+R6 model and alignment of endonuclease and reverse transcriptase protein domains. Bootstrap values ≤70% are shown. Phylogeny is rooted on plant L1 elements. Species are provided by the element name suffix, as follows: CR/cRei = C. reinhardtii; VC = V. carteri; cInc = C. incerta; cSch = C. schloesseri; eDeb = E. debaryana eud = Eudorina sp. 2016-703-Eu-15. B, Density (0%–100%) of ZeppL-1_cRei in 50 kb windows across C. reinhardtii chromosomes. Dark bands represent putative centromeres, x-axis ticks represent 100-kb increments and y-axis ticks represent 20% increments. Plot produced using karyoploteR (Gel and Serra, 2017). Note that ZeppL-1_cRei is a synonym of the Repbase element L1-1_CR (see Supplemental Data Set S1).