Figure 2

A. Analysis of cloned Lyc EPRV sequences and flanking sequences. Alignment of cloned EPRV sequences from S.lycopersicum (Le1-5) and S.habrochaites (Lh1-9) to the structure of TVCV-like EPRVs comprising four ORFs (upper bar): coat protein (CP), cell-to-cell movement protein (MP), polyprotein (POL) and transactivator domain (TAV). Rearranged coding regions are indicated by extra boxes and arrows for a deviating orientation of the reading frames. Nine clones contain parts of the intergenic region (IGR) marked by grey boxes with a white square for the position of the conserved 272 to 282 bp-box. Black bars indicate flanking sequences unrelated to EPRVs. Survey of sequences flanking the EPRVs in S.lycopersicum and S.habrochaites is given by coloured boxes. The majority represents repetitve elements (orange, red and blue boxes) most of which belong to retrotransposons (orange and red boxes), especially the LTR regions (red boxes). Arrows point towards the end of similar LTRs which is marked by a bracket. A description of the flanking sequences is listed in Table 1 according to the numbers. B. Sequence conservation within a 272 to 282 bp box of the IGR from different Solanaceae EPRV s. Alignment of the respective region of three LycEPRVs (Lh1, Lh2, Lh5) to three different tobacco EPRVs (TVCV, [2]; NsEPRV, [1]; NtoEPRV, [3]) and to two Solanum tuberosum EPRV copies (SoTuI-2, SoTuI-10; AJ564214, AJ564220; [4]). Next to a remarkable overall sequence homogeneity within the IGR region several shorter motives are highly conserved between EPRVs from all three species (red frames).