Table 1 Comparative statistics of downy mildew genome assemblies and select Phytophthora assemblies
From: Comparative genomics of downy mildews reveals potential adaptations to biotrophy
Genus | Species | Isolate/label | Scaffold N50 (kb)a | Scaffold count | Contig N50 (kb) | Contig Count | Assembly size (Mb) | Gaps (%) | Gene model countb | BUSCO | Reference | |||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Complete (%) | Duplicated (%) | Fragmented (%) | Missing (%) | |||||||||||
Peronospora | effusa | R13 | 72 | 784 | 48 | 1472 | 32.2 | 0.261 | 8607 | 97.8 | 0.4 | 0 | 2.2 | This study |
R14 | 61 | 880 | 52 | 1275 | 30.8 | 0.564 | 8571 | 97 | 0 | 0.4 | 2.6 | |||
tabacina | 968-J2 | 79 | 4016 | 11 | 10,799 | 63.1 | 27.351 | 11,310 | 94.9 | 29.5 | 3 | 2.1 | [23] | |
968-S26 | 61 | 3245 | 15 | 8552 | 55.3 | 19.089 | 10,707 | 94.9 | 29.1 | 3.4 | 1.7 | |||
Hyaloperonospora | arabidopsidis | Emoy2 | 332 | 3044 | 43 | 10,401 | 78.9 | 10.224 | 14,321 | 96.6 | 4.7 | 2.6 | 0.8 | [45] |
Psuedoperonospora | cubensis | ASM25260v1 | 4 | 35,539 | 4 | 35,539 | 64.3 | 0 | n/a | 94 | 2.1 | 4.7 | 1.3 | [82] |
Plasmopara | halstedii | OS-Ph8–99-BlA4 | 1546 | 3162 | 16 | 25,359 | 75.3 | 11.322 | 15,469 | 97.4 | 0 | 1.7 | 0.9 | [3] |
viticola | INRA-PV221 | 181 | 1883 | 49 | 3995 | 74.7 | 2.83 | n/a | 95.7 | 4.7 | 1.7 | 2.6 | [24] | |
JL-7-2 | 172 | 2165 | 14 | 23,193 | 101.2 | 16.712 | n/a (17,014) | 84.6 | 8.1 | 8.5 | 6.9 | [25] | ||
Sclerospora | graminicola | UoM-SG-P.1 | 18 | 26,786 | 16 | 28,799 | 299.9 | 0.29 | n/a (38,120) | 86.4 | 12.0 | 4.3 | 9.3 | [102] |
Phytophthora | infestans | T30–4 | 1589 | 4921 | 44 | 18,288 | 228.5 | 16.806 | 17,797 | 97 | 3 | 1.3 | 1.7 | [103] |
ramorum | ASM14973v1 | 308 | 2576 | 48 | 7589 | 66.7 | 18.346 | 15,605 | 97.4 | 3 | 1.7 | 0.9 | [104] | |
sojae | Physo3 | 7609 | 83 | 386 | 863 | 82.6 | 3.959 | 26,489 | 99.5 | 3.8 | 0 | 0.5 | [104] | |