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Table 4 Marker mining on 23 genome sequence assembly scaffolds bearing 24 markers linked to 11 key genes of agronomic traits of interest by sequence alignments among 10 sequenced cultivars of Lupinus angustifolius a

From: Application of whole genome re-sequencing data in the development of diagnostic DNA markers tightly linked to a disease-resistance locus for marker-assisted selection in lupin (Lupinus angustifolius)

Agronomic traits

Name of markers

Distance between marker and target gene (cM)

Reference

Scaffold identified

Scaffold size (bp)

Number of SNP markers from scaffold sequence alignment

Number of InDel markers from scaffold sequence alignment

Disease resistance gene PhtjR

DAFWA6895

0

[38]

Scaffold84773

33,448

489

101

Disease resistance gene PhtjR

PhtjM1

1.3

[44]

scaffold70674

11,068

102

39

Disease resistance gene PhtjR

PhtjM4

1.1

[44]

scaffold16849

40,716

526

259

Disease resistance gene PhtjR

PhtjM6

1.9

[44]

scaffold2572

55,753

808

263

Disease resistance gene PhtjR

PhtjM7

1.1

[44]

scaffold57606

13,893

188

62

Disease resistance gene Lanr1

DAFWA5820

0

[38]

scaffold 31581

15,706

225

33

Disease resistance gene Lanr1

AntjM1

3.5

[22]

scaffold83350

11,407

74

35

Disease resistance gene Lanr1

AntjM2

2.3

[14]

scaffold2992

33,979

341

188

Disease resistance gene Lanr1

AnSeq3

0.9

[37]

Scaffold33942

64,039

716

138

Disease resistance gene Lanr1

AnSeq4

0.9

[37]

Scaffold31346

33,727

221

158

Seed coat colour

DAFWA6428

0

[38]

scaffold11676

22,481

588

154

Seed coat colour

DAFWA4544

0

[38]

scaffold13708

44,176

821

81

Disease resistance gene AnMan

AnManM1

5.0

[16]

scaffold36514

50,220

311

213

Disease resistance gene Phr1

Ph258M1

5.7

[21]

scaffold84752

21,471

292

94

Disease resistance gene Phr1

Ph258M2

2.1

[21]

scaffold16252

15,559

212

25

Resistance gene against lupin rust disease

RustM1

Unknown

Unpublished

scaffold15347

42,210

578

25

Early flowering gene Ku

KuH

0

[25]

scaffold21489

30,923

676

23

Soft-seed coat gene mollis

MoA, MoLi

0

[23, 30]

scaffold75616

14,783

63

16

Pod-non-shattering le

LeLi

6.0

[29]

scaffold87978

9,909

59

17

Pod-non-shattering gene le

LeM2

1.3

[24]

scaffold79908

20,738

103

22

Pod-non-shattering gene tardus

TaM1

2.1

[26]

scaffold15347

21,529

578

25

Pod-non-shattering gene tardus

TaLi

1.4

[27]

scaffold36274

8,191

62

4

Low alkaloid gene iucundus

IucLi

0.9

[28]

scaffold30160

20,677

667

22

Average scaffold size and marker numbers

27,687

378

87

  1. aThe list of 10 sequenced cultivars is presented in Tables 2 and 5
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BMC Genomics

ISSN: 1471-2164

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