Table 5.

Numbers of unique polymorphic positions, heterozygous positions and indels along a 11259 character multigene (LSU, ITS, βtub, hsp90, tigA, rpl10, tef-1α, enl, ras-ypt1, cox1, nadhl, rps10) sequence alignment for 21 described Phytophthora species and P. taxon boehmeriae-like from Clade 10.

	Nonpapillate species										Airborne papillate species											Sister species and species complexes
	Primarily aquatic									Soil-borne
	P. gallica	P. intercalaris	P. ludoviciana	P. procera	P. pseudogallica	P. subarctica	P. tenuimura	P. tonkinensis	P. ukrainensis	P. scandinavica	P. boehmeriae	P. taxon boehmeriae-likec	P. morindaec	P. gondwanensis	P. kernoviae	P. chilensis	P. pseudochilensis	P. pseudokernoviae	P. celebensis	P. javanensis	P. multiglobulosad	P. gallica + P. subarctica	P. ludoviciana + P. tenuimura	P. ludoviciana, P. procera + P. tenuimura	P. chilensis + P. pseudochilensis	P. chilensis + P. pseudokernoviae	P. pseudochilensis + P. pseudokernoviae	P. chilensis, P. pseudochilensis + P. pseudokernoviae	P. chilensis, P. pseudochilensis, P. pseudokernoviae + P. kernoviae	P. celebensis + P. javanensis	P. celebensis + P. multiglobulosa	P. javanensis + P. multiglobulosa	P. celebensis + P. javanensis + P. multiglobulosa
Total no. of unique polymorphic positions present in > 50 % of isolates	33	78	56	73	82	53	46	125	64	100	65	39	77	64	44	11	23	20	28	15	8	50	48	251	10	3	2	16	73	4	0	8	116
No. of unique heterozygous positions present in > 50 % of isolates a	11	17	39	8	23	45	11	6	21	1	0	12	0	4	2	3	3	5	4	7	2	10	9	2	0	1	1	0	0	0	0	1	0
No. of unique indel positions present in > 50 % of isolates a	0	0	1	1	1	0	1	3	4	8	0	0	1	0	0	0	18e	0	0	0	0	16	3	89	0	0	0	1	3	0	0	0	11
Total no. of additional unique polymorphic positions present in individual isolates	27	30	1	18	1	0	19	0	1	0	4	0	0	10	7	0	0	1	0	0	0	n.a.	n.a	n.a.	n.a	n.a	n.a	n.a	n.a.	n.a	n.a	n.a	n.a
No. of additional unique heterozygous positions present in individual isolates b	24	29	1	14	1	0	11	0	1	0	0	0	0	4	4	0	0	1	0	0	0	n.a.	n.a	n.a.	n.a	n.a	n.a	n.a	n.a.	n.a	n.a	n.a	n.a
Total no. of heterozygous positions present in > 50 % of isolates	25	18	60	13	32	59	34	9	26	2	0	12	1	5	3	4	5	6	5	8	1	n.a.	n.a	n.a.	n.a	n.a	n.a	n.a	n.a.	n.a	n.a	n.a	n.a
No. of additional heterozygous positions present in individual isolates	30	42	3	19	1	0	18	0	5	0	0	0	0	7	7	0	0	1	0	0	0	n.a	n.a	n.a.	n.a	n.a	n.a	n.a	n.a.	n.a	n.a	n.a	n.a

^a The no. of unique heterozygous positions and the number of unique indels are included in the total no. of unique polymorphic positions present in the majority of isolates of a species.

^b The no. of unique heterozygous positions is included in the total no. of unique polymorphic positions present in individual isolates of a species.

^c For P. taxon boehmeriae-like and P. morindae ras-ypt1, nadhl and rps10 genes were not available; 9-gene alignment length 9 650 bp.

^d Due to a shorter length of the cox1 sequence the length of the 12-gene alignment of P. multiglobulosa; was 11098 bp.

^e all indels in hsp90.

^f all indels in ras-ypt1.

Due to the occurrence of intraspecfic variation some unique polymorphisms were only present in individual isolates of a species.

Nucleotides missing from the terminal part(s) of partial sequences and undetermined bases (N) were not considered as polymorphisms.