. 2021 Mar 24;12:642955. doi: 10.3389/fpls.2021.642955

Table 3.

Quantitative trait loci (QTL) identified for grain protein concentration (GPC) in the Pelissier × Strongfield population in each environment using GPC values and conditional mapping, and using best linear unbiased prediction (BLUP) values across eight environments, the marker at the peak LOD, peak LOD value, the additive effect, R², and interval in which the LOD score dropped by 2 points from the peak LOD value.

Chr	QTL	Env	Peak marker name	Peak marker ID	Peak position (cM)	LOD	Additive^a	R² (%)^b	Interval (2 LOD drop) (cM)	Interval makers (2 LOD drop)	Interval makers ID (2 LOD drop)
QTL mapping with GPC values
1B	QGpc.spa-1B.1	L14	BS00110546_51	IWB12562	75.9	3.5	0.20	5.7	69.1–85.7	BS00009699_51–GENE-0206_96	IWB6100–IWB31738
2B	QGpc.spa-2B.1	E14	Ex_c16854_1307	IWB19970	28.9	7.6	−0.23	16.0	27.6–32.4	RAC875_c1226_652–IAAV1903	IWB53512–IWB34469
		L16	Excalibur_c18417_285	IWB23131	38.8	8.5	−0.37	15.0	30–46.8	wsnp_Ex_c45094_50985067–Kukri_c8177_718	IWA3924–IWB47895
2B	QGpc.spa-2B.2	L14	Ku_c10415_662	IWB38099	65.8	5.4	−0.25	9.0	59.6–67.9	Ku_c12037_482–IAAV5674	IWB38293–IWB35071
		E16	Kukri_c25868_56	IWB43196	54.3	8.0	−0.39	13.0	52–59	RAC875_c28185_91–Ra_c72477_2165	IWB56173–IWB52584
2B	QGpc.spa-2B.3	E16	IAAV8475	IWB35482	2.5	3.3	−0.25	4.9	0–11.2	Excalibur_c3004_250–Excalibur_c1434_428	IWB24927–IWB22415
3A	QGpc.spa-3A.1	E14	BS00021981_51	IWB6837	7.5	4.5	−0.17	9.1	1.3–9.3	Excalibur_c11594_497–Tdurum_contig86206_149	IWB21927–IWB73711
3A	QGpc.spa-3A.2	E17	wsnp_Ex_c14681_22747500	IWA1922	20.5	4.7	−0.17	9.8	16.1–21.1	BS00063531_51–wsnp_Ex_rep_c69577_68526990	IWB9076–IWA5617
3A	QGpc.spa-3A.3	E15	Ku_c70534_1215	IWB39901	32.3	6.8	−0.23	12.8	28.9–34.2	wsnp_Ex_rep_c69864_68824236–BS00064039_51	IWA5650–IWB9177
		L15	Tdurum_contig98188_239	IWB74032	32.9	9.5	−0.35	18.1	26.7–36	RAC875_rep_c69465_181–Excalibur_c14216_692	IWB62575–IWB22387
		E16	RAC875_rep_c69465_181	IWB62575	27.7	10.7	−0.46	18.1	25.5–32.3	CAP7_c3367_68–Ku_c70534_1215	IWB14015–IWB39901
		L16	Ku_c70534_1215	IWB39901	32.3	5.5	−0.30	9.4	30.1–34.2	wsnp_Ex_rep_c69864_68824236–BS00064039_51	IWA5650–IWB9177
		E18	RAC875_c775_1264	IWB60468	37.7	8.8	−0.28	16.0	35.4–41.6	IAAV902–Kukri_rep_c111139_338	IWB35578–IWB49486
3A	QGpc.spa-3A.4	L14	RAC875_c5056_220	IWB58656	47.8	11.7	−0.38	21.5	44.7–52.8	BobWhite_c2868_183–BS00022845_51	IWB2226–IWB7288
5B	QGpc.spa-5B	E18	RAC875_c26607_676	IWB55955	24.1	3.5	−0.18	6.6	18–28.5	BS00076101_51–wsnp_Ex_c17450_26162037	IWB10851–IWA2220
7A	QGpc.spa-7A	E15	TA001083-0602	IWB65337	63.6	5.4	0.21	9.8	56–74.4	RAC875_c2682_840–BS00049729_51	IWB55990–IWB8555
		L15	BobWhite_c6193_298	IWB4104	62.9	3.9	0.22	6.9	53.6–74.5	RAC875_c2682_840–BS00049729_51	IWB55990–IWB8555
		E17	IAAV5054	IWB34967	70.4	5.2	0.24	10.8	63.6–73.5	TA001083-0602–BS00049729_51	IWB65337–IWB8555
		E18	BobWhite_c6193_298	IWB4104	62.9	8.3	0.32	14.8	62.4–67	BobWhite_c6193_298–IAAV5054	IWB4104–IWB34967
7B	QGpc.spa-7B	L15	GENE-1728_107	IWB32614	21.7	3.6	0.22	6.9	16.3–27.1	Tdurum_contig77503_738–GENE-1728_107	IWB73419–IWB32614
QTL mapping with BLUP values
1B	QGpc.spa-1B.2		Tdurum_contig56281_261	IWB72499	156.6	3.4	0.11	4.6	155.3–161.7	BS00023071_51–Tdurum_contig10362_555	IWB7410–IWB66483
2B	QGpc.spa-2B.1		IAAV1903	IWB34469	34.9	6.2	−0.15	9.0	27.6–38.2	GENE-1147_226–Kukri_c6830_572	IWB32258–IWB47454
3A	QGpc.spa-3A.3		Ku_c70534_1215	IWB39901	32.3	13.4	−0.23	20.7	28.6–36.9	RAC875_rep_c69465_181–Tdurum_contig43475_978	IWB62575–IWB71425
5B	QGpc.spa-5B		BS00076101_51	IWB10851	19.1	3.5	−0.11	5.0	9.3–27.8	Tdurum_contig9291_438–RAC875_rep_c74170_236	IWB73824–IWB63010
7A	QGpc.spa-7A		BobWhite_c6193_298	IWB4104	62.9	4.5	0.12	6.2	55.3–63.6	BS00074229_51–TA001083-0602	IWB10718–IWB65337
Conditional QTL mapping
1B	QGpc.spa-1B.2	L16	Kukri_c30461_857	IWB43857	163.61	4.05	0.20	7.7	162.4–168.6	BS00023071_51–Tdurum_contig10362_555	IWB7410–IWB66483
1B	QGpc.spa-1B.3	E17	Tdurum_contig60509_232	IWB72738	122.51	5.12	−0.20	10.2	117.7–126.5	Tdurum_contig52053_149–BobWhite_c16005_289	IWB72238–IWB859
2A	QGpc.spa-2A	L14	IAAV2585	IWB34575	50.81	3.52	0.18	7.4	40.4–53.7	Ex_c67274_1226–Kukri_c8180_193	IWB21111–IWB47898
3A	QGpc.spa-3A.2	E17	wsnp_Ex_c3478_6369892	IWA3498	19.91	4.70	−0.18	9.3	13.7–21.1	Tdurum_contig60631_336–wsnp_Ex_rep_c69577_68526990	IWB72751–IWA5617
		E18	BS00063531_51	IWB9076	16.11	5.08	−0.23	9.7	15.6–18.6	Tdurum_contig42496_1426–Tdurum_contig56748_632	IWB71206–IWB72529
3A	QGpc.spa-3A.3	E15	Ku_c70534_1215	IWB39901	32.31	5.51	−0.21	10.5	27.1–34.2	RAC875_rep_c69465_181–BS00064039_51	IWB62575–IWB9177
		L15	BobWhite_c2868_183	IWB2226	43.51	4.71	−0.27	8.6	37.1–51.8	Tdurum_contig43475_978–BS00022845_51	IWB71425–IWB7288
5A	QGpc.spa-5A	L14	wsnp_Ex_c807_1585614	IWA4765	20.81	3.77	0.19	8.0	8.8–22.7	wsnp_JD_c940_1381248–Tdurum_contig50779_383	IWA6226–IWB72119
6A	QGpc.spa-6A	E16	Excalibur_rep_c69900_395	IWB31095	107.01	3.62	0.17	7.9	103.3–111.2	Tdurum_contig97520_902–BS00085688_51	IWB74002–IWB11419
6B	QGpc.spa-6B	E15	RAC875_c13920_836	IWB53808	52.01	4.40	0.18	8.1	40–63	BS00064283_51–Tdurum_contig42414_612	IWB9241–IWB71115
7A	QGpc.spa-7A	E15	TA001083-0602	IWB65337	63.61	4.59	0.19	8.5	54.9–72.9	BS00074229_51–BS00049729_51	IWB10718–IWB8555
		L15	TA001083-0602	IWB65337	68.61	3.22	0.20	5.7	58–74.4	BS00074229_51–BS00049729_51	IWB10718–IWB8555
		E17	IAAV5054	IWB34967	62.91	3.98	0.16	8.3	58.6–67.8	BobWhite_c6193_298–BS00049729_51	IWB4104–IWB8555
		E18	BobWhite_c6193_298	IWB4104	63.61	6.89	0.27	13.3	50.8–74.4	BobWhite_c6193_298–IAAV5054	IWB4104–IWB34967

Chr, chromsome; Env, environment.

Additive effect; the positive values indicate that the alleles from Strongfield have the effect of increasing the trait value.

R² is the percentage of phenotypic variance explained by each QTL.