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

Amyotte et al.

Amyotte et al. BMC Genomics 2012 13:314   doi:10.1186/1471-2164-13-314

Open Data