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Table 4 Candidate genes, chromosomal position and SNP significantly associated with high rating detected by SNP-based GWAS

From: Genome-wide association mapping reveals novel sources of resistance to northern corn leaf blight in maize

No.

Candidate gene

Chromosome

Physical position (AGP v.2)

SNP

Allele

P value

FDR*

MAFa

R2

Annotation

1

GRMZM2G009715

3

87786034

SYN15223

G,A

1.63E-05

0.040

0.14

0.02

Potassium uptake protein TrkA

2

Intergenic

3

91910150

PZE-103066271

A,G

2.12E-05

0.051

0.05

0.02

 

3

Intergenic

3

92149095

PZE-103066064

C,A

7.73E-06

0.039

0.07

0.02

 

4

Intergenic

3

103166745

PZE-103062307

A,G

1.14E-06

0.021

0.09

0.03

 

5

Intergenic

3

103544700

PZE-103062210

A,G

9.29E-06

0.039

0.17

0.02

 

6

Intergenic

3

103769943

PZE-103062159

A,C

9.79E-06

0.039

0.13

0.02

 

7

Intergenic

3

146026075

PZE-103087994

A,C

1.35E-05

0.040

0.3

0.02

 

8

Intergenic

4

153495851

PZE-104079154

G,A

4.17E-06

0.039

0.25

0.03

 

9

GRMZM2G080842

4

153499805

SYN13972

A,G

8.29E-06

0.039

0.24

0.02

Mitochondrial carrier protein

10

GRMZM2G080842

4

153500453

SYN13976

C,A

1.09E-05

0.039

0.24

0.02

Mitochondrial carrier protein

11

GRMZM2G080842

4

153500492

SYN13977

A,G

1.23E-05

0.040

0.23

0.02

Mitochondrial carrier protein

12

GRMZM2G080842

4

153501980

PZE-104079162

C,A

1.04E-05

0.039

0.25

0.02

Mitochondrial carrier protein

13

GRMZM2G080842

4

153502008

PZE-104079163

A,G

1.07E-05

0.039

0.24

0.02

Mitochondrial carrier protein

14

GRMZM2G171605

4

186590896

PZE-104110312

A,G

1.84E-06

0.021

0.18

0.03

4'phosphopantetheinyl

transferase

15

GRMZM2G168807

5

165320067

SYN16674

A,C

1.50E-05

0.040

0.32

0.02

WW/Rsp5/WWP

16

Intergenic

5

187471551

PZE-105130754

A,G

1.47E-05

0.040

0.28

0.03

 

17

GRMZM2G151651

7

33447828

SYNGENTA5726

G,A

1.79E-06

0.021

0.08

0.03

 

18

GRMZM2G020254

10

65416520

PZE-110034333

A,G

1.24E-06

0.021

0.21

0.03

DNA-binding WRKY

19

GRMZM2G089484

10

88686456

PZE-110047506

G,A

1.59E-05

0.040

0.4

0.02

Tyrosine protein kinase

  1. *False discovery rate-corrected p-values
  2. aMinor allele frequency