Table 2.
Summary of TATE copy analyzes from the distinct genomes presenting at least one potentially encoding copy
| Species | No of analyzed copies | No of copies with at least one potentially encoding ORF | No of copies with the three potentially encoding ORFs | No of potential encoding copies with YR and RT/RT related domains | No of copies with SDRs | Structure of SDRs size in base pairs, percentage of identity | No of putative autonomous copies* | Mean identity among copies in nu (total) and aa levels (for each ORF)** |
|---|---|---|---|---|---|---|---|---|
| B. saltans | 5 | 2 |
2 *one ORF with the three genes |
0 | 1 |
5′ → A1, A2 3′ → B1 → B2 A: 73 bp, 99%; B: 161 bp, 81% |
0 |
nu: na Gag-like, YR, RT/RH (2, 1464 aa): 49% |
| T. theileri | 15 | 7 | 4 | 0 | 1 (incomplete/missing data) |
5′ → A1 3′ → A2 A: 91 bp, 100%;; B: missing data |
0 |
nu: na Gag-like: na YR (3, 584 aa): 45.3% RT/RH (4, 698 aa): 86.9% |
| C. fasciculata | 15 | 7 | 4 | 0 | 0 | na | 0 |
nu: na Gag -like (3, 240 aa): 31.1% YR (7, 727 aa): 44.8% RT/RH (3, 473 aa): 53.6% |
| C. mellificae | 11 | 3 | 1 | 1 | 1 (incomplete/missing data) |
5′ → A1 3′ → A2 A: 357 bp, 100%; B: missing data |
0 |
nu: na Gag-like (2, 240 aa): 25.6% YR (3, 434 aa): 36.3% RT/RH: 1 sequence |
| S. culicis | 15 | 1 | 1 | 0 | 0 | na | 0 | 1 sequence |
| Lep. pyrrhocoris | 15 | 11 | 4 | 0 | 0 | na | 0 |
nu: na Gag-like (5, 194 aa): 29.7% YR (10, 468 aa): 48.9% RT/RH (8, 882 aa): 55.6% |
| L. braziliensis | 15 | 15 | 7 | 6 | 1 |
5′ → A1 3′ → B1 → A2 → B2 A: 381 bp, 96%; B: 294 bp, 99% |
? |
nu: 90% Gag-like (8, 450 aa): 73.3% YR (15, 982 aa): 95.6% RT/RH (14, 954 aa): 96% |
*putative autonomous copies are those containing the tree expected ORFs plus direct repeats
**identity was estimated only for regions with confident alignment. The number of sequences and the size of alignment is shown in parenthesis
? the copy where the SDRs were identified presents a frameshift mutation in the third ORF, however, we do not rule out the possibility that the genome could have additional copies that were not detected due to assembling issues