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Figure 1 | Mobile DNA

Figure 1

From: Plant centromeric retrotransposons: a structural and cytogenetic perspective

Figure 1

Diversity of CRM families and their species of origin. (A) Neighbor-joining tree inferred from a comparison of reverse transcriptase (RT) domain sequences. The non-chromovirus element Tat4-1 was used as an outgroup, while members of the Tekay, Reina and Galadriel clades were included as representatives of other plant chromoviruses. Alignment of the RT domains is provided in Additional file 3: Alignment of RT domains. On the basis of differences at the C-terminus of integrase, the CRM families were divided into groups A, B and C (Figure 3). Previously described CRM members are shown in purple (see also Additional file 1: Origin and structural features of sequences used in this work). Families with confirmed centromeric localization are marked with orange stars (fluorescence in situ hybridization results) or green stars (in silico localization). Families having a dispersed chromosomal distribution are labeled with orange or green hexagons. Bootstrap values are shown only for the major nodes. Elements belonging to the Tekay, Reina and Galadriel clades are listed in Additional file 1: Origin and structural features of sequences used in this work. It should be noted that because of the limitations of the neighbor-joining method and the lack of representatives from a wider range of evolutionarily distant species, the tree topology may not fully reflect real phylogenetic relationships between different groups of CRM elements. (B) Taxonomy classification of the species containing the CRM elements. Dates of divergence between major groups of plants are from the work by Chaw et al. [105]. The names of CRM families present in the species are shown in brackets.

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