Figure 2

Phylogenetic analysis of VdLs.17 Class I and II elements. A) Ty1/Copia LTR retrotransposons, analysis of the reverse transcriptases (amino acid sequences); B) Ty3/Gypsy LTR retrotransposons, analysis of the reverse transcriptases (amino acid sequences); C) Tc1/mariner-like DAHLAIE 1, analysis of the full-length elements (TIR-comprising nucleotide sequences). Each element is identified by its chromosome location (supercontig and nucleotide position); D) Tc1/mariner-like DAHLAIE 1 to 3, analysis of complete transposases (amino acid sequences); E) Activator-like VdHAT elements, analysis of hAT transposase domains (amino acid sequences); F) Mutator-like VdMULE elements, analysis of MULE transposase domains (amino acid sequences). The trees indicate the GenBank accession number of the amino acid sequences analyzed, along with the abbreviation of the scientific names of organisms of origin. Abbreviations are as follow: Aa, Alternaria alternata (A) , Aspergillus awamori (D) ; Ac, Ajellomyces capsulatus; Af, Aspergillus flavus (A) , Aspergillus fumigatus (D) ; Ad/And, Aspergillus nidulans (A) , Ag/Ang, Aspergillus niger (D) ; At, Aspergillus terreus; Bf, Botryotinia fuckeliana; Cn, Cryptococcus neoformans; Cgl/Cg, Chaetomium globosum; Cf, Cladospororium fulvum; Cgs, Colletotrichum gloeosporioides; Dm, Drosophila melanogaster; Ds, Drosophila simulans; Fo/Fox, Fusarium oxysporum; Fom, Fusarium oxysporum melonis; Ma, Metharhizium anisopliae; Mo, Magnaporthe oryzae; Mt, Medicago truncatula; Pc, Penicillium crysogenum; Pm, Penicillium marneffei; Pn, Phaesphaeria nodorum; Pt, Pyrenophora tritici-repentis; Sc, Saccharomyces cerevisiae; Ss, Sclerotinia sclerotiorum; Sm, Sordaria macrospora; Ts, Talaromyces stipitatus. Scale bar corresponds to 0.1 substitutions per amino acid or nucleotide.