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Fig. 3 | Mobile DNA

Fig. 3

From: Systematic survey of plant LTR-retrotransposons elucidates phylogenetic relationships of their polyprotein domains and provides a reference for element classification

Fig. 3

Phylogenetic trees of Ty1/copia elements. Trees were calculated using maximum-likelihood from alignments of protein sequences of concatenated INT-RT-RH (a), INT (b), RT (c) and RH domains (d). Radial phylograms on the left were inferred from datasets containing sequences of both Viridiplantae and non-Viridiplantae elements. Collapsed rectangular phylograms on the right were inferred from data sets containing only sequences from Viridiplantae species. Branches containing elements from non-Viridiplantae species are in gray. Note the discrepancies among individual trees and the relationship of some Ty1/copia groups to non-Viridiplantae elements (branches labeled with circles and names) suggesting that evolution of Ty1/copia may have involved recombination as well as horizontal transfer. All trees were rooted using the Osser clade

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Mobile DNA

ISSN: 1759-8753