Figure 6

Phylogenetic relationship of Surge elements to other plant Ty3/Gypsy -like retrotransposons based on 118 parsimony-informative residues of the rt domain. The Tnt1 Copia-like element from Nicotiana was used as a phylogenetic outgroup. The alignment of ingroup and outgroup sequences was conducted manually with the aid of retroelement alignments reported in [76]; phylogenetic analysis was conducted using the heuristic search option of maximum parsimony. One of the three most parsimonious trees is reported. Bootstrap values (>50%) are indicated above branches and are based on 5,000 replicates. Class A and class B designations follow those reported in [12]. GenBank accession numbers and/or citations for sequences are: Legolas (AC007730), Tma1-1 (AAD22339), Gorge3 (EU098898), IRRE1 (consensus sequence reported in [39]), IRRE2 (consensus sequence reported in [39]), RIRE3 (AB014738), Kangourou (DQ365821), Del1 (X13886), Dea1 (Y12432), Gorge2 (DX404795), RetroSor1 (AAD19359), Cinful (AAD11615), Wallabi (DQ365824), RIRE1 (BAA22288), Athila (AB005248), Copia Tnt1 (P10978).