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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)

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

QTL Namea Chr. POPn Flanking Markers Size (cM) LODb Ac R2 (%) Source Referencesd
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 VALSMA; 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 VALSMA
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 VALSMA
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 VALSMA
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 VALSMA
qPro_Gm15–3 15 2 S15_10218629 S15_10877491 1.64 5.63 0.6925 11.5 AC X790P VALSMA; 4,8,9,10
qPro_Gm18–4 18 1 S18_52660341 S18_53019901 18.54 4.50 0.2713 10.4 AC X790P VALSMA; 2
  1. 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
  2. bLOD thresholds were calculated through a permutation test with 1000 iterations and a Type I error rate of 0.001
  3. 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)
  4. dIndicating that the QTL was confirmed in the other RIL population through multiple QTL mapping (VALMQM), single marker analysis (VALSMA), 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]