Genome analyses of the sunflower pathogen Plasmopara halstedii provide insights into effector evolution in downy mildews and Phytophthora

Table 1 Genetic features of oomycete genomes

	Pl. halstedii	Al. laibachii	Hy. arabidopsidis	Ph. capsici	Ph. infestans	Ph. ramorum	Ph. sojae	Py. ultimum	Sa. parasitica
Assembled genome size (Mb)	75.32	32.76	78.89	64.02	228.54	66.65	82.6	44.91	53.09
N50 scaffold size (Mb)	1.54	0.06	0.33	0.7	1.58	0.3	7.6	0.83	0.28
N50 count	16	130	70	29	38	63	4	19	46
Longest scaffold size (Mb)	3.42	0.58	1.23	2.71	6.92	1.24	13.39	1.82	1.61
Number of scaffolds	3,162	3,827	3,044	917	4,921	2,576	83	975	1,442
Genes	15,469	13,804	14,321	19,805	17,787	16,066	26,584	15,322	20,088
CDS	40,334	43,014	28,165	42,673	49,146	40,639	63,242	39,949	79,762
Gaps (N %)	11.32	0	10.22	12.47	16.81	18.35	3.96	4.72	9.33
Repeat elements (%)	39 %	22 %	43 %	19 %	74 %	28 %	39 %	7 %	40 %
Secretome^a	631 (631)	262 (672)	649 (1054)	1141 (1176)	1501 (1588)	1339 (1523)	1978 (1867)	926 (843)	1256 (1255)
Genome
AT %	54.70	55.65	52.78	49.57	49.03	46.14	45.39	47.69	41.54
GC %	45.29	44.34	47.21	50.42	50.96	53.85	54.60	52.30
Coding sequences
AT %	54.02	54.29	46.87	46.62	45.99	41.95	41.55	43.4	37.67
GC %	45.96	45.71	53.11	53.37	54.02	58.05	58.45	56.6	62.33
CEGMA
Complete KOG mapping (%)	97.18 %	93.40 %	95.39 %	98.00 %	96.76 %	96.44 %	98.02 %	97.13 %	97.20 %
Partial KOG mapping (%)	98.41 %	95.94 %	98.10 %	98.83 %	98.03 %	98.45 %	99.24 %	97.58 %	98.79 %

ISSN: 1471-2164