Table 3. Neutrality testsa for 22 white spruce genes with higher or lower linkage disequilibrium and harboring a significant Tajima's D value or Fay and Wu's H value.

Gene IDb	Annotation	Sc	Sid	LDe	Znsf	πg	Dh	Dsilent	Hi	F* j	D* k	Fsl	πa/πsm
31	Fasciclin-like arabinogalactan protein	50	38	Low	0.054	0.0081	−0.38	−0.39	−6.51*	−0.10	0.09	−24.22	0.20
47	Major intrinsic protein	20	16	Low	0.065	0.0049	−0.62	−0.46	−3.46*	−0.08	0.22	−10.93	0.06
101	Homeobox transcription factor KNAT	17	15	Low	0.117	0.0057	0.29	0.29	−4.75*	0.74	0.80	−4.84	0.00
20	Glycosyl transferase family 2 protein (cellulose synthase)	18	13	Low	0.140	0.0046	−0.33	−0.26	−3.27*	−0.40	−0.34	−3.92	0.03
14	Caffeoyl-CoA 3-O-methyltransferase	9	6	Low	0.231	0.0037	−0.43	−0.43	−1.87*	−0.64	−0.60	0.56	0.00
37	Cellulose synthase CESA3	13	6	Low	0.079	0.0023**	−1.60**	−1.51	−0.77	−2.22**	−2.02*	−4.90	0.05
50	α-Tubulin	16	7	Low	0.175	0.0030*	−1.34*	−1.34	1.44	−2.25**	−2.19*	−3.78	0
33	4-Coumarate-CoA ligase	19	12	Low	0.057	0.005*	−1.21*	−1.21	0.85	−1.26	−0.98	−6.27	0
103	Photoassimilate-responsive protein	21	9	Low	0.098	0.0063*	−1.19*	−1.11	0.23	−2.08**	−2.05**	−14.14	0.15
12	CYP81D2; electron carrier	15	8	Low	0.134	0.0028**	−1.89**	−1.89*	−4.53*	−2.02*	−1.61	−4.02	0
91	ATP binding/kinase/protein serine/threonine kinase	15	11	Low	0.087	0.0056*	−1.06*	−0.97	−0.58	−0.59	−0.22	−5.40	0.22
18	Cellulose synthase like	20	8	Low	0.191	0.0031*	−1.39*	−1.39	0.82	−2.47**	−2.44**	−2.75	0
88	Cellulose	28	14	High	0.173	0.0062*	−1.53*	−1.62	−2.20	−2.15*	−1.95*	−6.86	0.27
32	Glycosyl hydrolase 9A1	15	6	High	0.118	0.0017*	−1.43*	−1.43	−4.44*	−2.48**	−2.43*	−5.63	0
77	ERF transcription factor	8	7	High	0.478	0.0014*	−1.82*	−1.46	0.35	−0.21	0.59	−1.48	0.30
8	Xyloglucan:xyloglucosyl transferase	83	63	High	0.128	0.0164	−0.08	−0.06	−22.27** m	0.07	0.14	−5.31	0.14
68	Auxin-responsive protein	45	29	High	0.208	0.0091	−0.20	0.05	−4.43*	−0.66	−0.74	−4.70	0.46
6	Trans-cinnamate 4-monooxygenase	25	20	High	0.273	0.0091	0.23	0.36	−6.34*	0.28	0.24	1.22	0.06
52	β-Galactosidase	29	20	High	0.213	0.0063	−1.06	−1.04	−2.82*	−0.88	−0.57	−2.13	0.21
70	MYB transcription factor	26	20	High	0.182	0.0077	0.26	0.84	−1.95*	0.12	0.01	−5.46	2.06
26	Cellulose synthase	10	9	High	0.504	0.0046	1.36	1.36	−4.51*	1.15	0.79	−2.22	0.00
106	EIN3 transcription factor	11	9	High	0.589	0.0040	−0.83	−0.83	−6.26**	0.02	0.41	0.53	NA

Abbreviations: FDR, false discovery rate; LD, linkage disequilibrium; NA, not applicable; SNP, single-nucleotide polymorphism.

^a*P⩽0.05; ^** P⩽0.01 based on 1000 coalescent simulations using DnaSP.

^bGene identification as reported in Supplementary Table 1.

^cNumber of segregating sites S.

^dInformative SNPs.

^eHigh versus low LD as defined in comparison with the mean r² estimated from the merged 105 genes data set (see the ‘Results' section).

^fZns is the mean r² value (Kelly, 1997).

^gNucleotide diversity π. Values that are significantly smaller or larger than the average are indicated: ^*P⩽0.05, ^** P⩽0.01.

^hTajima (1989).

ⁱFay and Wu (2000).

^jFu and Li (1993).

^kFu (1997).

^lRatio of non-synonymous to synonymous nucleotide diversity.

^mSingle test result remaining significant after applying a correction for multiple testing (FDR, Q-value ⩽0.05).