Genetic diversity and selection of three nuclear genes in Schistosoma japonicum populations

Parasites & Vectors

Table 1 Genetic polymorphisms and natural selection of three nuclear genes in Schistosoma japonicum

Gene	Region	N	Genome sequence						Coding region only
Gene	Region	N	L (bp)	H	π	θ^w	Tajima’s D	Fu’s Fs	L (bp)	H	π	θ^w	dN/dS	Tajima’s D	Fu’s Fs
SjIpp2	Lakes^a	26	992	13	0.005	0.005	0.125	-2.152	594	5	0.003	0.003	0.078	0.052	0.457
	Mountainous^b	6		6	0.008	0.007	0.405	-1.427		4	0.006	0.005	0.092	0.508	0.426
	TW^c	4		2	0.003	0.003	-0.797	2.598		2	0.004	0.005	0.000	-0.797	2.598
	IN^c	4		3	0.004	0.003	1.168	1.031		2	0.005	0.004	0.000	2.080	2.719
	JP^c	2		2	0.004	0.004	nc	nc		2	0.007	0.007	0.000	nc	nc
	PH^c	3		2	0.003	0.003	nc	nc		2	0.005	0.005	0.000	nc	nc
	Total	45		21	0.006	0.007	–	–		10	0.004	0.004	0.085	–	–
SjFabp	Lakes^a	33	466	6	0.002	0.003	-0.927	-2.199	304	3	0.000	0.002	0.000	-1.502	-2.477
	Mountainous^b	10		3	0.001	0.002	-0.184	-0.272		2	0.001	0.001	nc	-1.112	-0.339
	TW^c	4		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	IN^c	5		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	JP^c	5		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	PH^c	2		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	Total	59		7	0.002	0.003	–	–		4	0.000	0.002	nc	–	–
SjT22.6	Lakes^a	33	446	10	0.005	0.007	-0.726	-2.308	342	7	0.004	0.004	0.429	-0.377	-1.733
	Mountainous^b	28		9	0.030	0.016	3.368^***	6.298^**		6	0.025	0.013	2.000	3.227^***	7.259^**
	TW^c	4		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	IN^c	5		1	0.000	0.000	nc	nc		1	0.000	0.000	nc	nc	nc
	Total	70		17	0.022	0.015	–	–		10	0.018	0.013	1.156	–	–

Abbreviations: N the number of individuals, L length, H the number of haplotypes; π, nucleotide diversity, θ ^w the Watterson estimator, dN the rates of nonsynonymous substitutions, dS the rates of synonymous substitutions, nc cannot be calculated
**P < 0.01; ***P < 0.001
^aLakes region: AHGC, Guichi, Anhui; AHTL, Tongling, Anhui; HBSS, Shashi, Hubei; HNCD, Changde, Hunan; HNYY, Yueyang, Hunan; JXDC, Duchang, Jiangxi; JXNC, Nanchang, Jiangxi
^bMountainous region: SCXC, Xichang, Sichuan; YNEY, Eryuan, Yunnan
^cOther localities in Asia: TW, Taiwan, China; IN, Indonesia; JP, Japan; PH, the Philippines

ISSN: 1756-3305