Table 1.
Genome assembly characteristics and comparisons across Fusarium species
| F. oxysporum f. sp. medicaginis | F. oxysporum f. sp. ciceris | F. oxysporum f. sp. pisi | F. oxysporum f. sp .lycopersici [9]b | F. oxysporum brassica [57] | F. solani (syn. Nectria haematococca) [11]b | F. verticilliodes (syn. Gibberella fujikuroi) [9] | F. graminearum (syn. Gibberell zeae) [17] | |
|---|---|---|---|---|---|---|---|---|
| Genome Abbreviation | Fom | Foc | Fop | Fol | Fob | Fs | Fv | Fg |
| Isolate | 5190a | 38-1 | NRRL37622 | 4287 | 5176 | MPVI 77-13-4 | 7600 | PH-1 |
| Chromosome number | Unknown | Unknown | 16 | 15 | Unknown | 17 | 11 | 4 |
| Host | Medicago spp. | Chickpea | Pisum | Tomato | Brassica spp. including Arabidopsis thaliana | Pea | Maize and cereals | Wheat and barley |
| Total assembly length (bp) | 51,139,932 | 54,813,009 | 55,188,000 | 57,720,560 | 54,767,602 | 47,328,059 | 41,104,290 | 36,346,967 |
| Average length (bp) | 12,674 | 36,961 | 116,923 | 3,607,535 | 6969 | 2,629,337 | 3,425,358 | 7,269,393 |
| Maximum length (bp) | 4,225,797 | 2,918,844 | 5,895,957 | 6,854,980 | 415,898 | 6,369,736 | 6,219,215 | 11,694,295 |
| Minimum length (bp) | 200 | 1000 | 2000 | 1,646,460 | 200 | 215,166 | 2,040,847 | 7,711,129 |
| L50 (bp) | 1,632,076 | 182,371 | 2,840,000 | 4,589,937 | 60,340 | 3,621,839 | 4,236,349 | 8,911,601 |
| N50 | 10 | 58 | 54 | 6 | 222 | 6 | 5 | 2 |
| Total sequences | 4034 | 1482 | 472 | 15 | 7858 | 17 | 11 | 4 |
| Total unknown bases (N) | 1,929,171 | 2,262,803 | 12,221 | 1,238,430 | 33 | 1915 | 87,573 | 212,843 |
| GC%c | 48.2 | 48.1 | 47.6 | 48.5 | 47.8 | 51.5 | 48.7 | 48.4 |
| Percentage of de novo predicted repetitive sequencesc | 1.5 | 5.4 | 8.2 | 21.9 | 9.4 | 3.1 | 1.3 | 1.5 |
| Percentage of predicted repetitive sequences based on comparison to known fungal repeats in Repbase | 1.0 | 2.4 | 2.8 | 4.4 | 2.4 | 1.4 | 0.8 | 0.9 |
| CEGMA Analysisa | ||||||||
| CEGMA partial % | 98 | 98 | 98 | 97 | 98 | 98 | 96 | 97 |
| CEGMA partial | 243 | 244 | 242 | 241 | 243 | 243 | 239 | 241 |
| CEGMA complete | 239 | 240 | 237 | 237 | 238 | 238 | 235 | 234 |
aNumber of complete Conserved Eukaryotic Genes found in the assembly of the core set of 248 defined by Parra et al. [46]
bReconstructed chromosome mapped regions only
cGC content and de novo repeat percentage based on RepeatMasker analysis of scaffolds versus de novo repeats