Table 1 Classification of 395 TE transcripts in L. vannamei transcriptome
From: Close ecological relationship among species facilitated horizontal transfer of retrotransposons
Group | Superfamily/clade | Number | Sum | Family/consensus sequence (number of transcripts) |
|---|---|---|---|---|
DNA transposon | EnSpm/CACTA | 1 | Â | - |
Harbinger | 2 | Â | Harbinger-N1_LVa (2) | |
Mariner/Tc1 | 1 | Â | - | |
hAT | 1 | Â | - | |
Unknown | 4 | 9 | DNA8-1_LVa (2) | |
LTR retrotransposon | BEL | 33 | Â | BEL-1_LVa-I (6), BEL-2_LVa (1) |
Copia | 6 | Â | - | |
DIRS | 1 | Â | - | |
Gypsy | 56 | 96 | Gypsy-12_LVa-I (3), Gypsy-14_LVa-I (3), Gypsy-16_LVa (3), Gypsy-17_LVa (4), Gypsy-18_LVa (1), Gypsy-1_LVa-I (1), Gypsy-3_LVa-I (1), Gypsy-4_LVa-I (7), Gypsy-5_LVa-I (1) | |
Non-LTR retrotransposon | CR1 | 50 | Â | Penelope-6_LVa (4) |
Crack | 2 | Â | - | |
Daphne | 3 | Â | - | |
I | 3 | Â | - | |
Ingi | 15 | Â | Ingi-1_LVa (5) | |
Jockey | 1 | Â | Jockey-1_LVa (1) | |
Kiri | 1 | Â | - | |
L2B | 1 | Â | - | |
Nimb | 53 | Â | Nimb-N2_LVa (1), Nimb-2_LVa (6), Nimb-1_LVa (30) | |
Penelope | 52 | Â | Penelope-1_LVa (31), Penelope-2_LVa (5), Penelope-3_LVa (8), Penelope-4_LVa (3), Penelope-5_LVa (2), Penelope-8_LVa (1) | |
RTE | 93 | Â | RTE-1_LVa (2), RTE-2_LVa (20), RTE-3_LVa (66), Gypsy-3_LVa-LTR (1) | |
RTEX | 1 | Â | - | |
Unknown | 9 | 284 | NonLTR-1_LVa (8) | |
Unknown | Unknown | 6 | 6 | TE-1_LVa (1) |