Table 2.
Transposable elements on the Fol4287 pathogenicity chromosome
|
Classification |
Designation1 |
Number |
Full length |
|||
|---|---|---|---|---|---|---|
| Order | Superfamily | Family | Number | number | ||
|
Class I (retrotransposon) |
|
237 |
|
237 |
58 |
|
| LTR |
Gypsy/Ty3 |
|
24 |
MAGGY-like retrotransposon (3 types) |
16 |
4 |
|
Skippy |
8 |
1 |
||||
| Copia/Ty1 |
|
55 |
NHT2-like retrotransposon (5 types) |
51 |
1 |
|
| Pcretro3-like retrotransposon |
4 |
1 |
||||
| unclassified |
|
20 |
Yaret2 |
20 |
6 |
|
| solo-LTR |
|
28 |
Yaret2 solo-LTR |
12 |
12 |
|
| Gollum (NHT2-like retrotransposon type 3 LTR) |
16 |
10 |
||||
| LINE |
|
|
68 |
MGR583-like LINE element |
31 |
3 |
| Yaret1 |
25 |
3 |
||||
| Yaret1-like |
12 |
0 |
||||
| SINE |
|
|
32 |
Foxy |
32 |
10 |
| unrelated |
|
|
10 |
Marsu |
10 |
7 |
|
Class II (DNA transposons) - Subclass 1 |
208 |
|
208 |
108 |
||
| Crypton |
|
|
1 |
FoCrypton |
1 |
1 |
| TIR |
Tc1/mariner |
Pogo |
41 |
Fot2 |
2 |
2 |
|
Fot3 |
7 |
2 |
||||
|
Fot4 |
1 |
0 |
||||
|
Fot5 |
23 |
6 |
||||
| Fot6 |
6 |
3 |
||||
| Fot8 |
2 |
0 |
||||
| Tc1 |
3 |
Impala |
3 |
0 |
||
| hAT |
70 |
Folyt1 |
3 |
3 |
||
| Folyt2 |
1 |
0 |
||||
| Frodo |
5 |
3 |
||||
|
Hornet |
16 |
7 |
||||
|
Drifter |
1 |
1 |
||||
| NhORF4-like |
2 |
1 |
||||
| Sam |
1 |
1 |
||||
| YahAT1 |
6 |
5 |
||||
| YahAT2 |
9 |
4 |
||||
| YahAT3 |
3 |
1 |
||||
| YahAT4 |
2 |
1 |
||||
| YahAT5 |
4 |
2 |
||||
| YahAT6 |
7 |
3 |
||||
| YahAT7 |
10 |
1 |
||||
| Mutator |
20 |
Hop |
1 |
0 |
||
| Hop3 |
6 |
4 |
||||
| Hop4 |
5 |
0 |
||||
| Hop5 |
2 |
1 |
||||
| Hop6 |
6 |
0 |
||||
| MITE |
73 |
mimp (unclassified) |
2 |
2 |
||
|
mimp1 |
24 |
16 |
||||
|
mimp2 |
7 |
6 |
||||
|
mimp3 |
6 |
5 |
||||
|
mimp4 |
17 |
16 |
||||
|
mFot5 |
14 |
11 |
||||
| Gimli |
3 |
0 |
||||
|
Class II (DNA transposons) - Subclass 2 |
9 |
|
|
|
||
| |
|
|
|
Helitron |
9 |
8 |
|
Class II (DNA transposons) - unclassified |
40 |
|
|
|
||
| |
|
|
|
unclassified |
40 |
2 |
| total number of TEs | 494 | 494 | 176 | |||
1 designations in bold letters indicate TEs that have been described in Fusarium oxysporum before.