Genetic diversity of Phytophthora infestans in the Northern Andean region

BMC Genomic Data

Table 1 Summary statistics for loci Cox1, Ras, ITS, β-tubuli n and Avr3a from P. infestans in the Northern Andean region and worldwide.

GEOGRAPHIC REGION	LOCUS	Sequences (N) ^a	Length (bp)	Segregating SITES	GENETIC VARIABILITY (Segregating Sites/Length)	π^b	θ SITE ^c	N Haplotypes	HD^d
NORTHERN ANDEAN (Colombia and Venezuela)	Cox1	73	669	1	0.15	0.0004	0.0003	2	0.3
	Ras	85	765	3	0.39	0.0008	0.0008	2	0.21
	β-tub	90	815	14	1.72	0.0015	0.0036	11	0.47
	Avr3a	80	444	12	2.70	0.0017	0.0055	4	0.12
Central Andes (Antioquia)	Cox1	17	669	0	0	0	0	1	0
	Ras	18	765	0	0	0	0	1	0
	β-tub	20	815	4	0.49	0.0012	0.0014	4	0.56
	Avr3a	16	444	0	0	0	0	1	0
Eastern Andes (Boyacá Cundinamarca)	Cox1	35	669	1	0	0.00009	0.0004	2	0.057
	Ras	35	765	0	0	0	0	1	0
	β-tub	36	815	2	0.24	0.0002	0.0006	3	0.16
	Avr3a	35	444	1	0.22	0.0001	0.0005	2	0.057
Southwestern Andes (Nariño)	Cox1	10	669	1	0.15	0.0005	0.0005	2	0.36
	Ras	12	765	0	0	0	0	1	0
	β-tub	21	815	12	1.47	0.004	0.004	9	0.843
	Avr3a	17	444	11	2.48	0.007	0.007	3	0.412
Venezuela	Cox1	11	669	1	0.15	0.0003	0.0005	2	0.182
	Ras	20	765	3	0.39	0.0021	0.0011	2	0.526
	β-tub	13	815	1	0.13	0.0002	0.0004	2	0.154
	Avr3a	12	444	0	0	0	0	1	0
REST OF THE WORLD	Cox1	69	669	4	0.59	0.0097	0.0012	5	0.574
	Ras	166	766	13	1.69	0.0031	0.0029	12	0.583
	β-tub	13	815	2	0.24	0.0011	0.0008	3	0.59
	Avr3a	8	444	4	0.9	0.0046	0.0035	3	0.607
	Cox1	142	669	4	0.59	0.00078	0.0011	5	0.473
WORLDWIDE	Ras	251	766	13	1.69	0.0024	0.0028	13	0.482
	β-tub	103	815	14	1.71	0.0016	0.0033	11	0.544
	Avr3a	88	444	12	2.7	0.002	0.0054	6	0.174

^a Numbers represent sequences and can exceed the numbers of strains due to heterozygous individuals
^b π = Nucleotide Diversity
^c θ SITE = Watterson's Theta per site
^d HD = Haplotype diversity
Colombia and Venezuela are designated NA; the rest of the world, corresponding to available sequences from other geographical origins, is designated R; and worldwide, corresponding to the combination of the two previous designations, is labeled W (W = NA +R).

ISSN: 2730-6844