TABLE 3.
Detected group I intron loci on the mitochondrial genomes of Trichoderma species.
| Species (GenBank assession no.) | Total number of introns (Numbers of subtypes) |
Replacement |
|||
| Subtype | Start position – Stop position [Length (nt)]b | Open reading framec | Note | ||
| T. atroviride ATCC 26799 (MN125601, this study) | 4 [IA (1), IB (3)] | IA IB IB IB | 22,709–24,328 (1,620 bp) 4,042–4,989 (948 bp) 5,404–5,638 (235 bp) 7,889–8,068 (180 bp) | rps3, orf455 orf320, LAGLIDADG – orf421, GIY-YIG | rrnL-i cob-i1 cob-i2 cox1-i |
| T. reesei QM9414 (AF447590)a | 11 [IA (2), IB (6), C2 (1), ID (2)] | IA IA IB IB IB IB IB IB IC2 ID ID | 12,058–13,712 (1,655 bp) 19,142–19,317 (176 bp) 29,238–30,185 (948 bp) 32,036–33,177 (1,142 bp) 33,521–34,590 (1,070 bp) 34,992–36,015 (1,024 bp) 36,298–36,477 (180 bp) 37,672–38,712 (1,041 bp) 20,553–20,784 (232 bp) 23,141–23,290 (150 bp) 28,844–28,966 (123 bp) | rps5 orf – – orf – – – orf – – | rrnL-i – cob-i2 cox1-i1 cox1-i2 cox1-i3 cox1-i4 cox1-i5 – cox2-i cob-i1 |
| T. asperellum B05 (NC_037075)a | 3 [IA (1), IB (2)] | IA IB IB | 4,056–5,686 (1,631 bp) 13,682–13,968 (287 bp) 28,833–28,979 (147 bp) | orf459 – orf305 | putative rrnL-i – cox3-i |
| T. hamatum (MF287973)a | 5 [IA (1), IB (3), IC2 (1)] | IA IB IB IB IC2 | 12,404–14,023 (1,620 bp) 6,995–7,141 (147 bp) 22,120–22,306 (187 bp) 29,220–29,399 (180 bp) 19,786–20,017 (232 bp) | rps3 LAGLIDADG GIY-YIG GIY-YIG LAGLIDADG | rrnL-i cox3-i cox2-i2 cox1-i cox2-i1 |
| T. gamsii KUC1747 (KU687109)a | 1 [IA (1)] | IA | 16,622–18,230 (1,609 bp) | Two orf genes | Both for rrnL-i |
aBased on the GenBank database on NCBI (datasets as of, December 2019). bDescriptions of the position and sizes of intron loci detected on the RNAweasel webserver (http://megasun.bch.umontreal.ca/cgi-bin/RNAweasel/RNAweaselInterface.pl). cIntronic ORF (i.e., intron-encoded ORF); rps3/rps5, genes coding for ribosomal proteins; orf, gene coding for hypotethical protein; LAGLIDADG or GIY-YIG, conserved structural motifs of homing endonuclease (HE); Non-existence of genes were indicated with a dash (–).