Skip to main content

Table 3 Genome summary statistics of representative ophiostomatoid isolates sequenced in this study

From: Ophiostomatoid fungi associated with pine bark beetles and infested pines in south-eastern Australia, including Graphilbum ipis-grandicollis sp. nov.

Species Ceratocystiopsis Graphilbum Leptographium s. l.. Ophiostoma s. l.
Ceratocystiopsis sp. G. fragrans G. ipis-grandicollis sp. nov G. cf. rectangulosporium Gro. huntii Gro. radiaticola O. angusticollis
Taxon Taxon 1 Taxon 2 Taxon 3 Taxon 4 Taxon 5 Taxon 6 Taxon 7
Sequenced strain VPRI43766 VPRI43528 VPRI43762 VPRI43763 VPRI43530 VPRI43523 VPRI43764
GenBank Accession JADHKF010000000 JADHKG010000000 JADHKH010000000 JADHKI010000000 JADHKJ010000000 JADHKK010000000 JADHKL010000000
Total reads after QC 27,063,242 50,135,289 49,429,518 46,778,484 94,294,776 114,599,394 10 454 088
Number of scaffolds 79 237 178 117 254 85 317
Longest contig (bp) 1,540,000 999,956 1,555,217 1,343,814 1,099,032 2,583,828 651 020
Est. genome size (Mb) 20.45 34.04 24.02 23.61 28.05 27.56 23.80
N50 (bp) 471,680 323,198 601,306 298,270 343,842 883,760 236 362
L50 12 32 13 22 25 11 34
# N's per 100 kbp 10 7 14 6 8 5 14
GC (%) 61.48 55.75 55.53 60.91 54.63 57.09 57.89
Avg. coverage depth 197 218 305 296 493 619 61
No. of predicted genes 6967 9034 7221 7270 7836 7867 8022
Est. gene density 341 265 301 308 279 286 337
Complete BUSCO (%) 95.20 97.10 95.60 95.70 97.40 96.40 96.60
Complete BUSCO (n) 3636 3706 3647 3651 3716 3680 3686
Complete—single 3631 3699 3644 3648 3710 3673 3680
Complete—duplicated 5 7 3 3 6 7 6
Fragmented 17 23 29 18 17 21 18
Missing 164 88 141 148 84 116 113
Species Ophiostoma s. lat. Raffaelea Sporothrix Graphium
O. fasciatum O. ips O. pallidulum R. deltoideospora S. euskadiensis S. cf. nigrograna S. pseudoabietina Graphium sp.
Taxon Taxon 8 Taxon 9 Taxon 10 Taxon 11 Taxon 12 Taxon 13 Taxon 14 Taxon 15
Sequenced strain VPRI43845 VPRI43529 VPRI43846 VPRI43720 VPRI43754 VPRI43755 VPRI43531 VPRI43844
GenBank Accession JADHKM010000000 JADHKN010000000 JADHKO010000000 JADHKP010000000 JADHKQ010000000 JADHKR010000000 JADHKS010000000 JADHKT010000000
Total reads after QC 51,287,508 37,261,588 36,666,452 35,927,882 29,627,312 37,781,794 36,719,768 28,160,580
Number of scaffolds 36 208 473 120 92 125 51 490
Longest contig (Mb) 2,360,849 1,117,630 543,815 1,965,135 1,881,930 1,307,617 3,412,636 1,008,604
Est. genome size (Mb) 22.54 26.01 32.66 30.95 36.13 27.34 35.20 31.65
N50 (bp) 966,108 283,044 126,120 416,364 790,753 398,989 1,285,428 190,968
L50 9 29 84 25 16 23 9 49
# N's per 100 kbp 4 8 12 18 11 12 8 12
GC (%) 65.26 56.88 57.93 54.55 52.70 59.54 53.27 50.12
Avg. coverage depth 341 209 167 173 122 205 154 132
No. of predicted genes 7498 7470 8757 7428 9348 7908 9190 9482
Est. gene density 333 287 268 240 259 289 261 300
Complete BUSCO (%) 96.60 96.90 97.20 94.90 98.10 97.20 97.80 96.60
Complete BUSCO (n) 3688 3696 3710 3621 3743 3710 3734 3686
Complete—single 3685 3690 3705 3613 3739 3703 3729 3679
Complete—duplicated 3 6 5 8 4 7 5 7
Fragmented 16 16 28 30 10 23 12 40
Missing 113 105 79 166 64 84 71 91