Table 1 Verticillium dahliae (VdLs.17) Class I and II transposable elements identified in this study
Name | Family | Length (bp) | LTR (bp) | TIR (bp) | TSD (bp) | Copy numbera | Element domain organizationb | Best BLAST hito | GenBank assession |
|---|---|---|---|---|---|---|---|---|---|
Class I | |||||||||
VdLTRE1 | Copia | 5873 | 213 | - | - | 24 | INT (3.53e-14); RVT_2 (6.12e-55); RH_Ty1 (1.96e-40) | EEA22357, Penicilium mameffei, identities 429/1277 (34%) | HM852745 |
VdLTRE2 | Gypsy | 6935 | 476 | - | - | 14 | GAG (2.3e-10); CCHC (3.36e-06); PR (9.23e-20): RVT_1 (2.93e-26); RH_Ty3 (3.09e-51): | AAG24792 (Cgnet), Collectotrichum gloeosporiodes, identities 673/1149 (59%) | HM852746 |
VdLTRE3 | Gypsy | 6828 | 433 | - | - | 4 | see VdLTRE2 | AAG24792 (Cgnet), Collectotrichum gloeosporiodes, identities 661/1101 (61%) | HM852747 |
VdLTRE4 | Gypsy | 6870 | 455 | - | - | 4 | see VdLTRE2 | AAG24792 (Cgnet), Collectotrichum gloeosporiodes, identities 661/1106 (61%) | HM852748 |
VdLTRE5 | Copia | 5555 | 159 | - | - | 2 | INT (1.01e-06); RVT_2 (8.41e-60); RH_Ty1 (6.26e-37) | EEA24286, Penicilium mameffei, identities 621/1306 (48%) | HM852749 |
VdLINE1 | LINE | 4905 | - | - | - | 8 | APE (5.68e-10); RVT_1 (3.59e-20); RH (7.53e-09) | EEA18490, Penicilium mameffei, identities 879/1269 (70%) | HM852750 |
Class II | |||||||||
DAHLIAE1a | Tc1/mariner | 1861 | - | 45 | 2 | 12 | HTH_psq (3.16e-06); HTH_Tnp_Tc5 (7.75e-04); DDE_1 (1.35e-58) | EGU83431, Fusarium oxysporum, identities 317/551 (58%) | JN160806 |
DAHLIAE1b | Tc1/mariner | 1862 | - | 41 | 2 | 4 | HTH_Tnp_Tc5 (4.32e-03); DDE_1 (6.10e-58) | EGU83431, Fusarium oxysporum, identities 317/539 (59%) | JN160807 |
DAHLIAE1c | Tc1/mariner | 1862 | - | 55 | 2 | 1 | HTH_psq (1.37e-06); DDE_1 (1.72e-59) | EGU83431, Fusarium oxysporum, identities 322/546 (59%) | JN160816 |
DAHLIAE1d | Tc1/mariner | 1862 | - | 53 | 2 | 9 | HTH_psq (1.37e-07); DDE_1 (1.72e-58) | EGU83431, Fusarium oxysporum, identities 317/548 (58%) | JN160808 |
DAHLIAE1e | Tc1/mariner | 1861 | - | 62 | 2 | 1 | DDE_1 (2.42e-46) | EGU83431, Fusarium oxysporum, identities 222/363 (61%) | JN160817 |
DAHLIAE2 | Tc1/mariner | 1909 | - | 62 | 2 | 1 | HTH_psq (3.31e-08); HTH_Tnp_Tc5 (2.12e-12); DDE_1 (2.95e-68) | ABG26270 (OPHIO2), Ophiostoma ulmi, identities 275/529 (52%) | JN160809 |
DAHLIAE3 | Tc1/mariner | 1949 | - | 102 | 2 | 1 | HTH_Tnp_Tc5 (1.36e-06); DDE_1 (5.53e-28) | EED116641, Talaromyces stipitatus, identities 148/400 (37%) | JN160810 |
VdHAT1 | Activator | 3164 | - | 22 | 8 | 1 | Dimer_Tnp_hAT (7.15e-19) | EAQ93808, Chaetomium globosum, identities 361/814 (44%) | JN160811 |
VdHAT3 | Activator | 2809 | - | 20 | - | 1 | Dimer_Tnp_hAT (1.54e-14) | EED11981, Talaromyces stipitatus, identities 265/652 (40%) | JN160812 |
VdMULE1 | Mutator | 3613 | - | 86 | 8 | 1 | MULE (3.86e-17) | EFZ03845, Metarhizium anisopliae, identities 385/569 (68%) | JN160813 |
VdMULE2 | Mutator | 3538 | - | 84 | - | 1 | MULE (3.49e-21) | EFZ03845, Metarhizium anisopliae, identities 306/441 (69%) | JN160814 |
VdMULE3 | Mutator | 3406 | - | 73 | - | 1 | MULE (3.61e-20) | EFZ03845, Metarhizium anisopliae, identities 372/548 (68%) | JN160815 |