Evolution and diversity of secretome genes in the apicomplexan parasite Theileria annulata

BMC Genomics

Table 2 Summary of sequencing results, neutrality tests and AMOVA

Gene name	Amplicon length (bp)	Coverage of C9* by ungapped consensus	Molecular variance among populations	Overall diversity & neutrality							Diversity & neutrality in Turkey
				n	S	π	θ _π	D (Tajima)	D (Fu & Li)	F (Fu & Li)	n	S	π	θ _π	D (Tajima)	D (Fu & Li)	F (Fu & Li)
SVSP1	551 - 576	89%	26%	23	151	0.028	41	-0.192	-0.947	-0.834	12	111	0.028	37	0.389	0.011	0.126
								0.371	0.425	0.483					0.391	0.427	0.453
SVSP2	409 - 414	97%	1%	21	101	0.025	32	-0.437	-0.520	-0.579	13	92	0.024	30	-0.370	-0.039	-0.147
								0.435	0.508	0.561					0.415	0.458	0.495
SVSP3	408 - 420	94%	3%	29	104	0.014	27	-1.548	-2.888	-2.889	19	53	0.011	15	-0.055	-0.858	-0.859
								0.456	0.622	0.601					0.620	0.731	0.800
SVSP4	476 - 508	92%	25%	30	138	0.021	35	-0.767	-1.749	-1.676	22	116	0.022	33	-0.405	-0.870	-0.851
								0.422	0.509	0.557					0.439	0.500	0.536
TashHN	333 - 337	100%	18%	16	20	0.006	6	0.155	-0.677	-0.510	10	13	0.005	5	0.137	-0.263	-0.184
								0.942	0.972	1.045					1.066	0.912	1.122
SuAT ₁	463 - 494	81%	71%	16	100	0.031	30	1.621	1.025	1.381	8	52	0.012	20	-1.031	-1.299	-1.379
								0.440	0.484	0.567					0.928	0.898	1.015

The number in italics below the value for each test is the upper limit of the 95% confidence interval, calculated by coalescence simulation based on θ_π and free-recombination, n = number of sequences compared, S = number of segregating sites, π = nucleotide polymorphism and θ_π = theta (an estimator of genetic variation) based on nucleotide polymorphism. * C9 is the name of the T. annulata Ankara clone used in the genome sequencing project. Results for TashAT2 and TashAT3 were not generated as the large number of gaps in the alignment precluded a meaningful analysis.

ISSN: 1471-2164