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Table 6 Summary of significant (−log10(PVal) ≥ 3) marker-trait associations identified by GWA based on the FV/FM trait and the corresponding candidate genes from the Blast results

From: Identification of manganese efficiency candidate genes in winter barley (Hordeum vulgare) using genome wide association mapping

Environment

Marker name

Position

GWA statistics

BLAST results

Chr

cM

-log10(P)

MAFa

Effect

SEb

Gene

cM

Description

GH13A

12_30482

3H

128.6

4.2

0.26

0.014

0.003

-

-

-

SCRI_RS_98443

4H

22.2

3.5

0.17

0.016

0.004

MLOC_75098.2

18.5

Cupin 1; Germin, Mn binding site

12_30239

51.0

3.4

0.14

-0.015

0.004

MLOC_82113.1

49.7

PSII PsbN

      

AK357955

54.3

Protein phosphatase 2C (PP2C) Mn/Mg aspartate binding site

SCRI_RS_142924

 

51.0

3.4

0.14

-0.015

0.004

AK249774.1

54.3

PSII PsbP, oxygen evolving complex

12_30987

100.6

3.7

0.43

0.012

0.003

MLOC_40094.1

99.1

PSI PsaA/PsaB

SCRI_RS_131671

101.6

3.2

0.43

0.011

0.003

SCRI_RS_157125

111.3

3.1

0.13

-0.015

0.004

AK367749

111.3

Cupin 1; Germin, Mn binding site

SCRI_RS_235762

111.3

3.1

0.13

-0.015

0.004

SCRI_RS_56

6H

4.9

3.4

0.30

0.011

0.003

-

-

-

12_30149

7H

62.4

3.1

0.36

0.011

0.003

-

-

-

SCRI_RS_184488

120.8

3.1

0.01

0.039

0.011

MLOC_3173.4

124.6

PP2C Mn/Mg aspartate binding site

MLOC_77860.1

124.6

PSII PsbP, oxygen evolving complex

GH13B

SCRI_RS_144892

6H

72.2

3.1

0.30

-0.013

0.004

-

-

-

KS11

SCRI_RS_137249

5H

50.0

3.1

0.13

-0.019

0.005

AK368229

47.9

Chlorophyll a/b binding protein

MLOC_18354.1

51.3

Chlorophyll a/b binding protein

11_10254

159.5

3.7

0.13

-0.021

0.006

AK251925.1

159.5

PSII Psb28, class 1

SCRI_RS_199298

159.5

3.1

0.13

0.019

0.006

SCRI_RS_235652

159.5

3.6

0.13

0.020

0.005

11_10870

159.5

3.6

0.12

0.022

0.006

SCRI_RS_237948

167.6

3.7

0.36

-0.015

0.004

-

-

-

SCRI_RS_174123

167.7

3.6

0.31

-0.015

0.004

SCRI_RS_239569

169.4

3.0

0.50

-0.012

0.004

LJ13

12_30823

2H

140.8

3.4

0.11

0.019

0.005

-

-

-

SCRI_RS_73620

142.3

3.3

0.40

-0.015

0.004

SCRI_RS_231015

147.3

7.4

0.18

-0.027

0.005

12_30002

3H

51.4

3.5

0.33

-0.025

0.007

MLOC_38362.2

51.6

Chlorophyll a/b binding protein

12_31372

51.4

3.5

0.32

-0.025

0.007

11_10365

51.6

4.5

0.32

0.029

0.007

SCRI_RS_173348

51.6

3.1

0.32

-0.023

0.007

11_20890

51.6

3.3

0.32

0.024

0.007

11_20102

51.6

3.5

0.32

0.025

0.007

SCRI_RS_137552

51.6

3.5

0.32

0.025

0.007

SCRI_RS_186504

51.6

3.5

0.32

0.025

0.007

11_10224

51.7

3.5

0.33

0.025

0.007

SCRI_RS_238114

51.8

3.4

0.33

-0.024

0.007

AK374059

52.6

PP2C Mn/Mg aspartate binding site

11_10349

51.8

3.1

0.33

0.023

0.007

12_31011

52.1

3.1

0.35

0.019

0.006

12_31393

52.6

3.4

0.33

0.021

0.006

11_21511

52.6

4.3

0.35

0.025

0.006

11_20276

52.9

3.4

0.33

0.021

0.006

11_20325

53.1

3.1

0.32

-0.020

0.006

11_10225

53.3

3.8

0.33

-0.022

0.006

SCRI_RS_201987

59.6

3.6

0.28

0.016

0.004

-

-

-

SCRI_RS_76971

61.7

3.6

0.28

0.016

0.004

AK369292

68.2

PSII PsbW, class 2

11_21414

5H

49.9

6.5

0.21

0.023

0.004

AK368229

47.9

Chlorophyll a/b binding protein

MLOC_18354.1

51.3

Chlorophyll a/b binding protein

  1. aMinor Allele Frequency
  2. bStandard error
  3. Allelic effect sign is estimated with respect to the minor allele. SNPs are ordered by environment and genome position