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Table 2 Significant SNP markers, QTLs, and candidate genes related to salt tolerance

From: Genome-wide association and differential expression analysis of salt tolerance in Gossypium hirsutum L at the germination stage

Marker

Chr

Position (bp)

-lg(P) (BLUP)

MarkerR2 (BLUP)

Environments

QTL

Physical Chr

Genomic position

No. of genes

TM3300

1

92,501,634

3.41

0.084

BLUP, 14, 15, 16

qGhST-c1

A01

92,402,641..92562754

7

TM4974

2

56,676,599

3.05

0.079

BLUP, 15

qGhST-c2

A02

56,176,476..56990091

6

TM8361

3

98,536,836

3.81

0.108

BLUP, 15, 16

qGhST-c3

A03

98,507,289..98618065

13

TM18816

7

8,674,003

3.26

0.083

BLUP, 15, 16

qGhST-c7–1

A07

8,654,507..8730789

5

TM19026

7

11,292,696

3.22

0.090

BLUP, 15, 16

qGhST-c7–2

A07

11,270,123..11494991

12

TM19028

7

11,312,723

3.06

0.087

BLUP, 15, 16

A07

 

TM19030

7

11,334,462

3.06

0.080

BLUP, 15, 16

A07

 

TM19035

7

11,356,480

3.13

0.084

BLUP, 15, 16

A07

 

TM41811

12

57,971,233

3.25

0.065

BLUP, 15, 16

qGhST-c12–1

A12

57,740,976..58054684

11

TM41814

12

58,100,057

3.33

0.069

BLUP, 14, 15, 16

qGhST-c12–2

A12

58,097,661..58230406

3

TM63245

16

2,688,021

3.00

0.060

BLUP, 16

qGhST-c16–1

D07

2,555,918..2766294

27

TM63387

16

5,545,380

3.73

0.099

BLUP, 14, 15, 16

qGhST-c16–2

D07

5,518,153..5573449

3

TM73567

20

6,921,040

3.43

0.068

BLUP, 14, 15, 16

qGhST-c20–1

D10

6,887,955..6965236

7

TM73573

20

6,959,800

3.02

0.077

BLUP, 15

D10

 

TM73579

20

6,996,881

3.40

0.068

BLUP, 14,15, 16

qGhST-c20–2

D10

6,991,910..7032029

2

TM67763

24

16,771,670

3.74

0.099

BLUP, 14, 15, 16

qGhST-c24–1

D08

16,766,258..16776082

0

TM68258

24

19,887,759

3.68

0.096

BLUP, 14, 15, 16

qGhST-c24–2

D08

19,884,918..19901251

2

TM3510

1

96,629,867

3.24

0.092

14

    

TM776

1

14,254,094

3.40

0.098

14

    

TM4108

2

7,344,966

3.00

0.082

14

    

TM8353

3

98,481,949

3.01

0.079

16

    

TM18851

7

9,689,745

3.05

0.084

16

    

TM18989

7

11,034,281

3.07

0.081

16

    

TM19015

7

11,198,513

3.01

0.078

16

    

TM19017

7

11,226,724

3.09

0.080

16

    

TM19018

7

11,232,229

3.07

0.079

16

    

TM19023

7

11,276,537

3.20

0.082

16

    

TM53602

17

4,200,687

3.18

0.092

14

    

TM71972

23

33,356,265

3.02

0.064

14

    

TM71987

23

33,461,358

3.09

0.066

14

    

TM67849

24

17,321,002

3.89

0.112

14

    

TM68645

24

31,157,957

3.21

0.089

14

    

TM68879

24

44,114,822

3.03

0.060

16

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