Table 3. Genes containing or near SNPs significantly associated with the traits PL, PW and GERM in control and Fusarium inoculated seedlings. For each marker, the genomic position (pos_AGP3), the surrounding or adjacent gene, the type and the conserved domain of the encoded protein (where available) and the amino-acid variation caused by the SNP are reported.

N°	Gene_id	Strand1	pos_AGP3	Description	Conserved domains	Genic2	Amino-acid3
1	GRMZM5G851807	+	237936341	Putative DNA-directed RNA polymerase family protein	PRK13042, superantigen-like protein, DUF3223, SPT5 elongation factor	TRUE	E_UTR
2–19	GRMZM2G058394	+	768454	Putative thaumatin domain family protein	Glycoside hydrolase family 64	TRUE	No change
3–15	GRMZM2G087186	—	45520333	Pyruvate decarboxylase isozyme 3	Pyruvate decarboxylase domains	TRUE	No change
4–16			45520455			TRUE	E_UTR
5–17			45520473			TRUE	E_UTR
6–18			45520608			107	NA
7–33	GRMZM2G141638	+	166839392	Putative AP2/EREBP transcription factor superfamily protein	AP2 domain	TRUE	No change (T1), E_UTR(T2)
8	GRMZM2G027232	+	30775149	50S ribosomal protein L11;	Ribosomal protein	TRUE	E_UTR
9			30775150			TRUE	E_UTR
10			30775154			TRUE	E_UTR
11	GRMZM2G031370	+	106433186	Uncharacterized protein	RABGAP_TBC domain GTPase activator protein in yeast	TRUE	E_UTR
12	GRMZM2G058162	—	106571097	putative ubiquitin-conjugating enzyme family	UBCc superfamily	400	NA
13	GRMZM2G338376	—	108482377	Uncharacterized protein	Serine threonine protein kinase	TRUE	Intron
14	GRMZM2G012224	+	290593516	Putative uncharacterized protein	DUF642/ and CBM_4_9_Carbohydrate binding domain	1114	NA
20	GRMZM2G426802	—	3359556	Signal transducer	WD40 signal transducer,	TRUE	Intron
21	GRMZM5G800586	—	200505296	Uncharacterized protein	BURP domain of unknown function	TRUE	Intron
22			200505834			TRUE	E_UTR
23			200505836			TRUE	E_UTR
24			200505837			TRUE	E_UTR
25			200505838			TRUE	E_UTR
26			200505842			TRUE	E_UTR
27			200505869			TRUE	E_UTR
28	GRMZM2G154954	+	31465101	Glycine rich protein 3	No conserved domains	TRUE	No change
29	GRMZM2G024799	—	163929482	SF16 protein	No conserved domains	TRUE	E_UTR
30	GRMZM2G008250	+	174872171	Uncharacterized protein	No conserved domains	TRUE	No change
31	GRMZM2G040627	+	2072269	Uncharacterized protein	Uracil-DNA glycosylase /DNA repair	TRUE	No change
32	GRMZM2G025783	—	220400327	Protein kinase Kelch repeat:Kelch	Kelch and Fbox associated with LRR	484	NA
34	GRMZM2G497710	+	207023192	Uncharacterized protein	Wall-associated receptor kinase galacturonan-binding, GUB_WAK_bind domain.	TRUE	E_UTR
35	GRMZM2G028568	+	207029118	Uncharacterized protein	Serine threonine protein kinase(stress response/ GUB_WAK domain	45	NA
36	GRMZM2G071970	+	6914037	Brittle stalk-2-like protein 4	COBRA-like protein	TRUE	E_UTR
37	GRMZM2G032648	—	24629650	Uncharacterized protein	CBS domain	TRUE	No change (T1) E_UTR (T2)
38	GRMZM2G125432	+	201652485	NA	Putative SET-domain protein	TRUE	E_UTR (T1-2)
39	GRMZM2G171801	—	216492681	NA	DEAD-box ATP-dependent RNA helicase 48-like	TRUE	R317K
40	GRMZM2G129288	+	150269434	Uncharacterized protein	TUB and F-box domain	TRUE	Intron (T1-2-3), E_UTR (T4-5)
41	GRMZM2G126010	—	99908826	Actin-1	Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily	TRUE	E_UTR
42	GRMZM2G139460	+	171298650	Uncharacterized protein	DUF4228	229	NA

1: indicates if the gene is on the forward (+) or reverse (-) strand. 2: indicates if the marker is inside (TRUE) a gene, otherwise the distance from the closest gene is reported. 3: indicate the amino acid variation (reference amino acid/position of variation/new amino acid), SNPs located in un-translated regions are reported (E_UTR); if the SNP had different consequences on different transcripts, of the same gene, that of interest is reported, NA means that the marker is not inside the gene.