Table 3. Significantly associated SNP markers (P_adj≤1.00×10⁻⁴).

SNP Id	Contig	Position in contig	P	P_adja	Traitb	Genotype Minor/major	Homolog in Hetan2 Scaffold:Position	Protein Idc	Gene Ontology	Gene	Substitution	AA change (+strand) Minor/Major
2541	4128	41529	7.50×10−6	1.00×10−4	SFG	T/C	2:90374	–	–	–	Intergenic	None
31888	41480	4151	4.82×10−5	1.00×10−4	PFG	G/A	13:580629	148882	0016787, Hydrolase activity	Putative calcineurin	Synonymous	None
31890	41480	4348	4.82×10−5	1.00×10−4	PFG	T/G	13:580826	148882	0016787, Hydrolase activity	Putative calcineurin	Intron	None
31891	41480	4414	4.82×10−5	1.00×10−4	PFG	G/A	13:580892	148882	0016787, Hydrolase activity	Putative calcineurin	Synonymous	None
31898	41480	8609	4.82×10−5	1.00×10−4	PFG	T/C	13:575283	–	–	–	Intergenic	None
31912	41480	11461	4.82×10−5	1.00×10−4	PFG	T/C	13:569318	482843	0005515, Protein binding; 0008270, Zinc ion binding	Unknown	Non-synonymous	Cys (C)/Arg (R)
31915	41480	12127	4.82×10−5	1.00×10−4	PFG	T/C	13:569985	482843	0005515, Protein binding; 0008270, Zinc ion binding	Unknown	Synonymous	None
7164	16590	17829	9.63×10−5	1.00×10−4	PFG	A/G	10:1046969	454667	–	Exopolyphosphatase	Non-synonymous	Phe (F)/Ser (S)
4981	9600	30323	4.46×10−5	1.00×10−4	PFG	A/G	1:562288	99077	–	SWI5 transcription factor	Synonymous	None
37656	45322	6635	6.93×10−5	1.00×10−4	SFG	T/C	3:163145	102298	–	Unknown	Intron	None
6505	15627	792	7.50×10−6	1.00×10−4	SFG	T/C	13:53143	–	–	–	Intergenic	None
51971	50191	17454	2.12×10−5	1.00×10−4	SFG	C/T	5:438018	–	–	–	Intergenic	None

^a P-value adjusted after 10,000 permutations.

^bSFG, fungal growth in spruce sapwood, upstem and downstem combined; PFG, fungal growth in pine sapwood, upstem and downstem combined.

^cProteinId number for the homologous gene in Hetan2, http://genome.jgi-psf.org/Hetan2/Hetan2.home.html.