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Table 2 A summary of LD observed among marker pairs and the number of significant marker pairs per genome and chromosome

From: Genome-wide association mapping and genomic prediction for pre‑harvest sprouting resistance, low α-amylase and seed color in Iranian bread wheat

Chromosome

Total

Landrace

Cultivar

TNSP

r2

Dis. (cM)

NSSP

TNSP

r2

Dis. (cM)

NSSP

TNSP

r2

Dis. (cM)

NSSP

1A

111,575

0.111829

1.333712

49,917 (44.74%)

94,575

0.116906

1.568634

34,895 (36.9%)

85,625

0.148069

1.736676

27,111 (31.66%)

2A

137,150

0.251605

0.856962

79,772 (58.16%)

125,450

0.289098

0.936772

68,972 (54.98%)

119,450

0.288518

0.972951

57,769 (48.36%)

3A

96,450

0.130453

2.27878

44,914 (46.57%)

74,950

0.134097

2.933748

28,787 (38.41%)

85,000

0.15728

2.574908

25,912 (30.48%)

4A

130,500

0.317779

1.378513

79,428 (60.86%)

110,850

0.369392

1.594492

66,016 (59.55%)

116,700

0.36745

1.50704

58,086 (49.77%)

5A

71,850

0.132927

2.005721

32,488 (45.22%)

60,100

0.146486

2.402626

24,483 (40.74%)

60,600

0.166755

2.38547

18,725 (30.9%)

6A

99,050

0.158856

1.296073

52,549 (53.05%)

85,850

0.178539

1.498357

40,739 (47.45%)

86,550

0.178744

1.486057

29,651 (34.26%)

7A

149,700

0.193545

1.164988

78,616 (52.52%)

128,550

0.211862

1.358487

64,114 (49.87%)

129,900

0.232161

1.343972

49,454 (38.07%)

1B

150,800

0.154279

0.932852

80,419 (53.33%)

135,600

0.154625

1.035051

64,442 (47.52%)

132,400

0.20421

1.063407

49,705 (37.54%)

2B

187,300

0.156885

0.764253

102,236 (54.58%)

157,350

0.176011

0.910909

79,057 (50.24%)

166,950

0.19665

0.858127

66,140 (39.62%)

3B

201,700

0.210733

0.771726

119,399 (59.2%)

173,200

0.220043

0.89872

90,266 (52.12%)

177,550

0.243607

0.876084

78,180 (44.03%)

4B

60,050

0.115027

2.20477

23,537 (39.2%)

44,800

0.09777

2.968273

12,423 (27.73%)

52,600

0.142347

2.516753

13,477 (25.62%)

5B

152,400

0.15014

1.292476

80,669 (52.93%)

136,300

0.14202

1.445522

57,252 (42%)

135,650

0.202818

1.431617

55,651 (41.03%)

6B

190,850

0.13708

0.658245

99,314 (52.04%)

167,500

0.135522

0.750676

71,975 (42.97%)

159,700

0.203568

0.787671

66,038 (41.35%)

7B

150,100

0.121987

0.987127

70,107 (46.71%)

127,550

0.12878

1.153868

51,602 (40.46%)

134,150

0.155388

1.102364

41,168 (30.69%)

1D

48,650

0.238268

3.477302

26,009 (53.46%)

42,500

0.226198

3.808863

20,075 (47.24%)

38,350

0.285881

4.409069

16,564 (43.19%)

2D

69,550

0.183692

1.586178

31,547 (45.36%)

55,400

0.163933

1.999469

21,117 (38.12%)

49,600

0.228564

2.23156

16,357 (32.98%)

3D

37,050

0.116765

4.639072

5460 (14.74%)

31,800

0.165445

5.245984

11,619 (36.54%)

26,800

0.137566

6.273779

5458 (20.37%)

4D

13,500

0.122822

9.104484

4560 (33.78%)

11,800

0.130958

10.56137

3577 (30.31%)

11,550

0.154924

10.56621

2312 (20.02%)

5D

31,750

0.130873

6.894582

12,308 (38.77%)

26,250

0.134737

8.311197

9238 (35.19%)

23,700

0.147915

9.317761

5518 (23.28%)

6D

38,300

0.123729

4.134238

15,652 (40.87%)

34,900

0.136001

4.545476

12,619 (36.16%)

29,750

0.137805

5.369092

6852 (23.03%)

7D

46,700

0.150286

4.409549

17,838 (38.2%)

42,300

0.147515

4.882439

14,457 (34.18%)

35,850

0.201644

5.778975

10,863 (30.3%)

A genome

796,275

0.195029

1.397647

417,684 (52.45%)

680,325

0.220024

1.631824

328,006 (48.21%)

683,825

0.232699

1.61945

266,708 (39%)

B genome

1,093,200

0.154972

0.95375

575,681 (52.66%)

942,300

0.1588

1.106081

427,017 (45.32%)

959,000

0.199661

1.084318

370,359 (38.62%)

D genome

285,500

0.162046

4.054108

113,374 (39.71%)

244,950

0.1634

4.684331

92,702 (37.85%)

215,600

0.197637

5.369609

63,924 (29.65%)

Whole genomes

2,174,975

0.170566

1.523235

1,106,739 (50.89%)

1,867,575

0.181706

1.766921

847,725 (45.39%)

1,858,425

0.211583

1.778371

700,991 (37.72%)

  1. r2 average squared allele frequency correlation, TNSP Total number of SNP pairs, NSSP Number of significant SNP pairs (P < 0.001), Dis Distance