Genomic regions associated with important seed quality traits in food-grade soybeans

BMC Plant Biology

Table 1 Major putative QTL (R² > 10.0%) associated with soybean seed protein concentration identified by multiple QTL mapping (MQM) in the two RIL populations (‘AC X790P x S18-R6’ and ‘AC X790P x S23-T5’) evaluated in five environments (CHA15, CHA16, MER15, MER16 and PAL16)

QTL Name^a	Chr.	POPn	Flanking Markers		Size (cM)	LOD^b	A^c	R² (%)	Source	References^d
qPro_Gm01–2	1	2	S01_42371693	S01_42555910	2.19	4.56	0.4578	10.4	S23-T5	–
qPro_Gm02–3	2	1	S02_40793724	S02_41072417	4.58	5.16	0.4115	10.4	AC X790P	VAL_SMA; 1,2
qPro_Gm04–3	4	2	S04_44592458	S04_45008840	1.64	5.25	0.4931	11.0	S23-T5	2, 3, 11
qPro_Gm04–4	4	1	S04_48435528	S04_49024162	14.21	6.03	0.3570	13.7	AC X790P	–
*qPro_Gm05–2*	5	1	S05_38330071	S05_38993543	12.31	6.80	0.4132	14.2	AC X790P	VAL_SMA
qPro_Gm06–1	6	1	S06_19074	S06_699413	1.68	10.19	0.4408	21.9	S18-R6	–
*qPro_Gm06–3*	6	1	S06_9128442	S06_11029737	19.08	5.51	0.3339	12.6	S18-R6	VAL_SMA
qPro_Gm06–6	6	1	S06_30639643	S06_33589987	0.28	5.80	0.3046	13.2	AC X790P	2, 5, 6, 7
*qPro_Gm08–2*	8	1	S08_43864875	S08_43896183	2.25	5.38	0.3936	12.3	AC X790P	VAL_SMA
qPro_Gm12–3	12	1	S12_924424	S12_1147989	11.46	6.45	0.4943	11.6	S18-R6	–
qPro_Gm12–4	12	1	S12_3518939	S12_3666689	7.64	6.63	0.4757	12.0	S18-R6	–
*qPro_Gm13–4*	13	2	S13_28227783	S13_28254683	4.46	8.54	2.2804	11.6	AC X790P	VAL_SMA
qPro_Gm15–3	15	2	S15_10218629	S15_10877491	1.64	5.63	0.6925	11.5	AC X790P	VAL_SMA; 4,8,9,10
qPro_Gm18–4	18	1	S18_52660341	S18_53019901	18.54	4.50	0.2713	10.4	AC X790P	VAL_SMA; 2

^aQTL for the same trait detected in all individual environments (CHA15, CHA16, MER15, MER16 and PAL16) and the combined environment (GMET) with the same or overlapping marker interval was designated as one QTL. QTL highlighted in bold are novel QTL and were validated in the other RIL population
^bLOD thresholds were calculated through a permutation test with 1000 iterations and a Type I error rate of 0.001
^cAdditive effects calculated as the absolute value of half the subtraction of the mean of genotypes with the ‘S18-R6’ (‘POPn_1’) or ‘S23-T5’ (POPn_2) allele (negative effect) from the mean of genotypes with the ‘AC X790P’ allele (positive allele)
^dIndicating that the QTL was confirmed in the other RIL population through multiple QTL mapping (VAL_MQM), single marker analysis (VAL_SMA), and/or has been reported previously in the reference(s): 1. [31] 2. [30] 3. [32] 4. [28] 5. [34] 6. [36] 7. [35] 8. [26] 9. [29] 10. [27].11. [33]

ISSN: 1471-2229