. 2020 Mar 11;10(5):1713–1725. doi: 10.1534/g3.120.401153

Table 3. Significant marker–trait associations for evaluated traits.

Genome	Trait	SNP Position	Chromosome	p-value	FDR Adjusted p-values	Gene	SNP position relative to the candidate gene^a	Candidate gene annotation
Criollo	Deformed branches WBD	9,316,991	2	2 ^E-08	0.138	Tc02v2_g014130	0	G-type lectin S-receptor-like serine/threonine protein
	Deformed branches WBD	29,572,898	3	5 ^E-09	0.182	Tc03v2_g015970	0	Protein IWS1
	Flower cushion broom WBD	1,064,432	2	4 ^E-07	2 ^E-3	Tc02v2_g001650	0	Ion channel DMI1
		770,436	2	4 ^E-07	2 ^E-3	Tc02v2_g001090	0	Xyloglucan galactosyltransferase
		4,523,324	2	2 ^E-07	2 ^E-3	Tc02v2_g007330	0	MLO-like protein
	Pods FPRD	18,354,976	1	2 ^E-04	0.280	Tc00cons_t021470.1	−11.4 kb	S-locus lectin protein kinase family
	Harvested healthy pods	10,111,356	8	4 ^E-07	0.330	Tc08v2_g012850	+5.2 kb	RNA-directed DNA polymerase
	Harvested healthy pods	21,845,071	2	7 ^E-09	0.330	Tc00cons_t021570.1	−22,0 kb	Ty3-gypsy retrotransposon
Matina	Deformed branches WBD	9,415,422	2	6 ^E-09	0.300	Unkown
	Deformed branches WBD	27,458,385	3	1 ^E-04	0.300	Thecc1EG015342	0	Protein IWS1
	Flower cushion broom WBD	1,107,779	2	5 ^E-07	2 ^E-3	Thecc1EG006180	0	Ion channel DMI1
		794,296	2	5 ^E-07	2 ^E-3	Thecc1EG006099	0	Xyloglucan galactosyl transferase
		4,567,399	2	2 ^E-08	4 ^E-3	Thecc1EG006939	0	MLO-like protein
	Pods FPRD	18,890,740	1	3 ^E-04	0.655	Thecc1EG003068	0	Unknown
	Pods FPRD	27,025,499	1	4 ^E-04	0.655	Thecc1EG003830	0	Retrotransposon-like protein
	Harvested healthy pods	9,466,348	8	1 ^E-04	0.309	Unkown
		8,295,774	8	3 ^E-04	0.309	Unkown
		9,491,291	4	3 ^E-04	0.309	Thecc1EG017982	0	Ty3-gypsy retrotransposon

SNP position relative to the closest candidate gene: upstream and downstream SNPs of candidate genes are specified with “–” and “+,” respectively. 0 indicates that SNPs are located within the candidate gene.