What plant parasitic nematode genomes are available on SCNBase and which is best?

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