Genome assembly and annotation statistics for H. glycines and related species. BUSCO was run on both Eukaryota_odb10 and Nematoda_odb10, using both genome and predicted proteins. The max missing score was computed by removing the 666 BUSCO genes from Nematoda_odb10, that were not found in any of the 8 genomes assessed. Total represents the total base pairs of every unit (gene, transcript, exon), while count refers to the number of units in the genome. Statistics modified from Masonbrink et al 2021.
| H. glycines TN10 pseudomolecule | H. glycines TN10 Draft | H. glycines X12 pseudomolecule | Globodera rostochiensis | Globodera pallida | Globodera ellingtonae | Meloidogyne hapla | Meloidogyne incognita | |
|---|---|---|---|---|---|---|---|---|
| Available on SCNBase | Yes | Yes | Yes | No, try Wormbase | No, try Wormbase | No, try Wormbase. Annotation is here. | No, try Wormbase | No, try Wormbase |
| Number of scaffolds | 9 | 738 | 267 | 4,281 | 6,873 | 2,246 | 3,452 | 12,091 |
| Number of contigs | 2,109 | 738 | 888 | 17,236 | 18,270 | 13,843 | 3,452 | 13,148 |
| Percent scaffolded contigs | 100.0% | N/A | 92.6% | 94.2% | 90.1% | 94.8% | N/A | 25.0% |
| Genome size (base pairs) | 157,982,452 | 123,847,574 | 141,354,287 | 95,876,286 | 123,625,196 | 105,964,814 | 53,017,507 | 183,531,997 |
| N50 scaffold length (base pairs) | 17,908,190 | 304,127 | 16,265,615 | 88,688 | 120,481 | 327,189 | 37,608 | 62,516 |
| L50 scaffolds | 4 | 109 | 4 | 278 | 296 | 85 | 372 | 1,209 |
| N's (%) | 1.06% | 0.00% | 0.73% | 4.61% | 16.17% | 0.85% | 0.00% | 1.81% |
| Gaps | 4,328 | 0 | 1,244 | 47,076 | 35,940 | 26,075 | N/A | 10,490 |
| BUSCO Proteins (Eukaryota_odb10) | C:78.0%[S:69.0%,D:9.0%],F:7.8%,M:14.2%,n:255 | C:89.0%[S:68.2%,D:20.8%],F:3.1%,M:7.9%,n:255 | C:64.7%[S:58.8%,D:5.9%],F:13.7%,M:21.6%,n:255 | C:63.2%[S:62.4%,D:0.8%],F:18.4%,M:18.4%,n:255 | C:48.2%[S:43.9%,D:4.3%],F:22.4%,M:29.4%,n:255 | C:59.6%[S:59.6%,D:0.0%],F:18.4%,M:22.0%,n:255 | C:65.1%[S:64.7%,D:0.4%],F:16.9%,M:18.0%,n:255 | C:70.2%[S:18.0%,D:52.2%],F:12.2%,M:17.6%,n:255 |
| BUSCO Genome (Nematoda_odb10) | C:55.6%[S:52.5%,D:3.1%],F:2.3%,M:42.1%,n:3131 | C:55.1%[S:47.4%,D:7.7%],F:2.0%,M:42.9%,n:3131 | C:52.2%[S:49.0%,D:3.2%],F:1.8%,M:46.0%,n:3131 | C:60.0%[S:58.9%,D:1.1%],F:1.9%,M:38.1%,n:3131 | C:46.7%[S:43.5%,D:3.2%],F:2.5%,M:50.8%,n:3131 | C:54.4%[S:52.8%,D:1.6%],F:2.4%,M:43.2%,n:3131 | C:45.4%[S:44.5%,D:0.9%],F:4.7%,M:49.9%,n:3131 | C:63.6%[S:24.0%,D:39.6%],F:1.0%,M:35.4%,n:3131 |
| BUSCO Proteins (Nematoda_odb10) | C:60.2%[S:51.5%,D:8.7%],F:1.5%,M:38.3%,n:3131 | C:66.5%[S:47.7%,D:18.8%],F:1.6%,M:31.9%,n:3131 | C:53.9%[S:49.4%,D:4.5%],F:2.2%,M:43.9%,n:3131 | C:66.7%[S:64.3%,D:2.4%],F:2.1%,M:31.2%,n:3131 | C:45.6%[S:41.9%,D:3.7%],F:2.8%,M:51.6%,n:3131 | C:65.4%[S:56.5%,D:8.9%],F:2.0%,M:32.6%,n:3131 | C:59.6%[S:58.5%,D:1.1%],F:2.2%,M:38.2%,n:3131 | C:68.5%[S:13.9%,D:54.6%],F:1.7%,M:29.8%,n:3131 |
| BUSCO Max Missing (Nematoda_odb10) | 299/2465 (12.1%) | 274/2465 (11.1%) | 476/2465 (19.3%) | 215/2465 (8.7%) | 711/2465 (28.8%) | 300/2465 (11.4%) | 384/2465 (15.6%) | 223/2465 (9%) |
| Gene Statistics | Total : 102,643,360 Count: 22,465 Mean: 4,569 Max: 334,901 | Total: 71,832,760 Count: 29,769 Mean: 2,413 Max: 65,717 | Total: 41,620,250 Count: 11,882 Mean: 3,502 Max: 97,943 | Total: 39,556,786 Count: 14,308 Mean: 2,764 Max: 43,003 | Total: 39,553,007 Count: 16,403 Mean: 2,411 Max: 203,234 | Total: 44,105,901 Count: 19,428 Mean: 2,270 Max: 34,634 | Total: 26,366,893 Count: 14,419 Mean: 1,828 Max: 21,476 | Total: 87,998,653 Count: 45,351 Mean: 1,940 Max: 55,968 |
| Transcript Statistics | Total: 103,726,162 Count: 23,933 Mean: 4,334 Max: 334,904 | Total: 82,225,676 Count: 32,271 Mean: 2,547 Max: 65,717 | Total: 41,620,250 Count: 11,882 Mean: 3,502 Max: 97,943 | Total: 39,558,194 Count: 14,309 Mean: 2,764 Max: 43,003 | Total: 39,553,007 Count: 16,403 Mean: 2,411 Max: 203,234 | Total: 49,290,306 Count: 20,704 Mean: 2,380 Max: 34,634 | Total: 26,366,893 Count: 14,419 Mean: 1,828 Max: 21,476 | Total: 87,760,630 Count: 43,718 Mean: 2,007 Max: 55,968 |
| Exon Statistics | Total: 28,809,023 Count: 182,837 Mean: 157 Max: 5,764 | Total: 38,506,160 Count: 234,671 Mean: 164 Max: 12,491 | Total: 16,809,661 Count: 100,197 Mean: 167 Max: 6,154 | Total: 18,085,706 Count: 125,167 Mean: 144 Max: 11,924 | Total: 17,623,861 Count: 131,459 Mean: 134 Max: 12,238 | Total: 24,938,405 Count: 162,096 Mean: 153 Max: 9,312 | Total: 15,015,088 Count: 88,145 Mean: 170 Max: 8,465 | Total: 48,111,770 Count: 275,269 Mean: 174 Max: 10,685 |
| References | Masonbrink, R.E., et al., 2021 | Masonbrink, R.E., et al., 2019 | Lian, Y., et al., 2019 | Eves-van den Akker, S., et al 2016 | Cotton, J.A., et al 2014 | Phillips W.S., et al., 2017 | Opperman, C.H., et al 2008 | Abad, P., et al., 2008 |