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Table 2 Summary of the quantitative trait loci (QTL) detected using the maize IBM population evaluated in a Fe-deficient nutrient solution, where Chr. is the chromosome, Pos. the position in centi Morgan on the genetic map, Add. the additive effect, %r 2 the percentage of the explained phenotypic variance, and genetic map interval in centi Morgan of the flanking markers with corresponding physical map interval including the number of genes in the corresponding QTL confidence interval according to the filtered gene set B73 RefGen_v2

From: The genetic basis of natural variation for iron homeostasis in the maize IBM population

Trait

QTL

Chr.

Pos. (cM)

Add.

%r2

Interval (cM)

Flanking markers

Physical map interval

Genes

SP3

1

1

556.0

1.5

1.7

553.6

-

557.6

umc1748

-

bnlg1615

191,860,023

-

192,968,163

17

SP3

2

2

524.0

3.1

8.3

523.5

-

529.2

umc1604

-

bnlg1316

211,345,382

-

212,352,714

29

SP3

3

4

226.0

0.2

< 0.1

225.7

-

228.4

umc1963

-

umc1652

26,437,539

-

27,757,462

22

SP3

4

4

240.0

3.1

2.8

237.8

-

245.5

bnlg490

-

agrr301

31,323,581

-

40,458,411

186

SP3

5

7

252.0

4.1

13.7

249.1

-

252.4

umc1929

-

umc1787

105,804,341

-

110,057,749

42

SP3

6

8

464.0

4.1

15.0

460.8

-

464.0

bnlg1065

-

rz538a

165,689,209

-

166,244,750

20

SP3

7

9

206.0

-1.5

0.9

204.4

-

208.5

ufg71

-

mmp170b

25,825,748

-

26,709,137

19

SP3

8

9

222.0

4.2

7.2

220.7

-

223.9

psr160c

-

rz273c

26,822,048

-

49,039,937

292

    

Total

59.4

          

SP4

1

1

834.0

6.1

21.9

833.0

-

839.3

chrom7

-

glb1

256,342,909

-

257,540,930

26

SP4

2

4

278.0

4.1

5.8

277.8

-

279.9

psr152b

-

nnr1

46,450,572

-

65,900,096

202

SP4

3

4

300.0

0.2

< 0.1

299.9

-

300.2

bnlg1755

-

mmp45

118,324,214

-

135,333,950

173

SP4

4

8

194.0

-3.2

6.3

191.0

-

194.1

mmp120

-

mmp72

23,404,908

-

60,338,399

367

    

Total

40.1

          

SP5

1

1

690.0

-4.6

10.3

685.2

-

690.5

lim442

-

mmp189

214,921,545

-

219,064,269

68

SP5

2

1

838.0

8.4

34.0

833.0

-

839.3

chrom7

-

glb1

256,342,909

-

257,540,930

26

SP5

3

4

238.0

5.1

14.0

237.8

-

245.5

bnlg490

-

agrr301

31,323,581

-

40,458,411

186

    

Total

49.4

          

SP6

1

1

690.0

-3.8

4.9

685.2

-

690.5

lim442

-

mmp189

214,921,545

-

219,064,269

68

SP6

2

1

714.0

-2.3

1.7

711.5

-

714.4

umc1128

-

umc1147

224,265,940

-

224,970,667

18

SP6

3

1

830.0

7.7

27.7

825.8

-

833.0

rz403

-

chrom7

255,041,502

-

257,540,930

53

SP6

4

4

238.0

5.2

14.1

237.8

-

245.5

bnlg490

-

agrr301

31,323,581

-

40,458,411

186

    

Total

44.2

          

RL

1

3

452.0

-6.9

18.0

451.5

-

452.7

jpsb79

-

umc60

180,725,934

-

180,867,611

4

    

Total

18.0

          

RW

1

1

824.0

0.5

0.8

821.5

-

825.8

csu696

-

rz403

253,570,111

-

256,342,908

57

RW

2

1

846.0

0.8

1.9

839.3

-

847.3

glb1

-

csu222a

256,342,909

-

261,572,322

145

RW

3

5

74.0

1.3

12.6

73.3

-

74.4

mmp43

-

bnl7.21c

3,727,289

-

3,810,656

6

RW

4

5

412.0

1.2

11.0

410.8

-

413.6

umc1155

-

csu173

180,186,573

-

181,568,742

33

RW

5

7

148.0

0.7

3.7

132.0

-

148.5

asg34a

-

gta101a

14,027,268

-

14,698,304

10

RW

6

7

290.0

0.9

5.9

288.9

-

298.4

umc116a

-

umc1713

127,039,567

-

129,866,479

59

RW

7

8

194.0

-0.9

6.7

191.0

-

194.1

mmp120

-

mmp72

23,404,908

-

60,338,399

367

    

Total

58.9

          

SL

1

1

840.0

2.4

9.6

839.3

-

847.3

glb1

-

csu222a

256,342,909

-

261,572,322

145

    

Total

9.6

          

SDW

1

1

888.0

0.3

11.1

887.5

-

890.9

cdo122a

-

AY110019

263,205,925

-

270,965,223

186

SDW

2

4

238.0

0.3

11.9

237.8

-

245.5

bnlg490

-

agrr301

31,323,581

-

40,458,411

186

SDW

3

7

164.0

0.1

0.4

162.4

-

167.4

AY105589

-

npi600

17,029,068

-

21,464,802

82

SDW

4

7

174.0

-0.1

< 0.1

170.8

-

178.0

crt2

-

AY110473

24,318,258

-

50,154,299

312

SDW

5

7

184.0

0.3

1.4

183.7

-

184.4

uaz187

-

mmp26

50,078,806

-

50,149,169

3

    

Total

34.6

          

H2O

1

2

370.0

-0.3

8.0

369.3

-

373.5

umc1079

-

bnlg1036

152,207,394

-

163,566,033

150

H2O

2

4

272.0

-0.4

8.8

271.4

-

274.7

umc1964

-

AY110290

42,102,039

-

46,621,469

69

H2O

3

4

300.0

-0.1

0.9

299.9

-

300.2

bnlg1755

-

mmp45

118,324,214

-

135,333,950

173

H2O

4

9

138.0

0.3

0.8

131.1

-

139.0

omt2

-

mmp162

15,578,721

-

18,071,240

91

H2O

5

9

146.0

-0.7

1.7

142.6

-

147.5

bnlg244

-

bnlg1401

18,040,440

-

18,071,240

0

H2O

6

9

150.0

0.6

2.0

147.5

-

153.0

bnlg1401

-

mmp77

18,561,278

-

18,607,113

0

H2O

7

9

164.0

0.1

0.6

162.5

-

170.4

mmp30

-

umc1698

16,660,671

-

20,791,656

146

    

Total

35.9

          

SDW/SL

1

8

466.0

< 0.1

14.4

464.0

-

466.5

rz538a

-

umc1607

165,636,122

-

166,188,782

20

    

Total

14.4

          

BTR

1

1

672.0

-1.1

7.3

670.2

-

685.2

umc23a

-

lim442

212,899,665

-

219,195,665

110

BTR

2

1

836.0

1.9

20.9

833.0

-

839.3

chrom7

-

glb1

256,342,909

-

257,540,930

26

BTR

3

8

156.0

1.0

6.4

153.3

-

156.6

umc1974

-

psr598

16,722,932

-

18,272,098

35

    

Total

36.7

          

LAT

1

8

188.0

-0.8

11.8

179.5

-

191.0

umc1530

-

mmp120

22,245,756

-

25,351,500

59

    

Total

11.8

          

NEC

1

1

208.0

-0.8

19.0

205.0

-

208.5

lim122

-

umc1073

27,398,858

-

32,868,895

125

NEC

2

2

90.0

0.6

12.6

87.8

-

90.3

BE640649

-

npi421a

6,474,435

-

6,534,813

1

    

Total

24.0

          
  1. Total is the percentage of the phenotypic variation explained by all QTL for a trait in a simultaneos fit.
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BMC Plant Biology

ISSN: 1471-2229

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