Table 2 Characterization of regions of reduced diversity in founding ancestors of each population
Chr.Pop.Percent FoundersaMidsite MarkerbStart (bp)Stop (bp)log2xa)πaMajor QTL/Genec or Selective Sweepd Overlap
80-I86201438,409,07139,587,082<−80.1Wen et al. 2015
100-I100107428,888,71332,173,874<−80.05
10III-IV100107428,888,71332,173,874<−80.05
10V+100107428,888,71332,173,874<−80.05
180-I100227448,936,18649,279,506<−80.18
20V+10054418,760,80922,082,754<−80.08
6V+83103416,372,27616,548,439−6.530.23
16V+50121429,198,88929,895,378−5.30.29Zhou et al. 2015
10-I1005047,476,07710,015,701−4.340.16Zhou et al. 2015
1V+67148452,033,78452,821,919−4.280.28Methionine
190-I86144436,758,51637,272,085−4.240.22Zhou et al. 2015
10-I100123449,196,74649,637,775−3.470.35
170-I1003244,161,6274,680,961−3.460.25
140-I86121419,720,77125,312,530−3.320.22Wen et al. 2015
20V+6768426,836,04029,865,868−3.310.2Protein/yield
100-I71175443,758,24544,436,997−3.270.32Maturity-e2
200-I7171428,639,25631,998,840−3.260.12Protein/yield
80-I100218440,881,27841,453,586−3.220.21
12V+673342,681,0363,072,635−3.220.29
70-I100126415,793,41616,436,790−3.20.28
11III-IV75143433,511,55534,570,537−3.040.14
110-I10070410,516,05111,429,744−2.870.15
170-I43104414,159,74315,834,164−2.860.27Zhou et al. 2015
17V+6787413,006,40713,154,755−2.820.4
190-I1003043,591,3384,759,347−2.80.12
13V+6794857,0221,644,249−2.780.31
13V+6794857,0221,644,249−2.780.31
20V+83135442,078,11343,040,384−2.740.25Seed weight
4III-IV33188448,242,48648,922,546−2.630.29Wen et al. 2015
11V+67142433,371,74534,403,523−2.570.14
20V+5077432,581,22633,137,092−2.560.22Maturity-e4
19III-IV67202446,033,55547,088,579−2.510.29Maturity-e3
120-I1005345,163,1526,044,298−2.490.17Pubescence form
110-I86143433,511,55534,570,537−2.480.14
11V+1006348,633,8649,963,410−2.460.2
180-I100213447,719,92548,017,046−2.450.4Wen et al. 2015
14III-IV100120419,264,65423,701,369−2.390.22
12V+678348,419,6519,023,940−2.350.23Zhou et al. 2015
8V+831542,331,2072,729,661−2.350.31
90-I1004245,002,3755,769,646−2.350.36
6V+67121418,916,84121,745,751−2.320.38Maturity-e1, Zhou et al. 2015
  • Chr., chromosome; Pop., population; QTL, quantitative trait locus.

  • a Percent of founding ancestors possessing the major haplotype.

  • b Markers are indexed from 1 to the total markers for that chromosome based on genomic position as depicted in Figure 3.

  • c Based on cloned genes deposited in Soybase and publicly available data from three genome-wide association studies (Vaughn et al. 2014; Sonah et al. 2015; Zhou et al. 2015).

  • d Identified as improvement sweeps in Wen et al. (2015) or Zhou et al. (2015).