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Table 3 Crucial stage-specific candidate genes identified by GWAS, WGCNA, and differential expression analysis

From: Genome-wide association study and transcriptome analysis reveal key genes affecting root growth dynamics in rapeseed

Gene ID

Cluster

Distance to peak SNP (Kb)

Type4_10DAT

Type4_3EL

Type4_5EL

Type4_7EL

Type5_10DAT

Type5_3EL

Type5_5EL

Type5_7EL

Gene_symbol

Description

Darkorange

 BnaA05g22690Dc

S9

409.40

12.06

2.92

3.27

1.33

1.61

0.88

7.62

0.16

–

–

 BnaA08g24120Dc

#13

238.10

9.35

4.23

2.85

4.51

1.44

2.90

5.88

6.59

FUT6

Fucosyltransferase 6

White

 BnaA03g43140Db

#3

106.11

1.28

1.19

3.24

1.16

0.37

0.03

0.07

0.00

FCAALL.41

Putative glycerol-3-phosphate transporter 4

 BnaA03g47900Db

S3

34.26

0.00

0.35

2.79

0.85

0.66

0.41

0.00

0.27

–

–

 BnaA09g07790Db

S10

107.12

0.66

0.70

2.66

0.99

0.65

0.39

0.27

0.18

DAR3

Protein DA1-related 3

 BnaC08g33940Db

#20

118.76

1.64

3.88

12.71

4.35

2.83

0.56

1.69

0.27

REIL2

Cytoplasmic 60S subunit biogenesis factor REI1 homolog 2

Red

 BnaA03g42930Da

#3

32.11

2.07

4.87

1.50

2.05

13.84

1.41

0.31

1.28

–

–

 BnaA09g07840Da

S10

89.43

2.24

3.90

1.15

3.02

12.80

5.08

1.66

1.95

PSBO1

Oxygen-evolving enhancer protein 1–1

 BnaC01g22700Da

S19

0.06

3.35

4.12

4.70

5.38

22.74

7.92

4.62

4.68

FD3

Ferredoxin-3

 BnaA03g54270Db

#5

252.24

0.39

0.44

0.46

0.41

4.20

1.38

0.63

0.75

–

–

 BnaA05g05400Db

S6

114.77

22.97

21.13

26.99

30.04

58.49

33.78

26.45

37.25

PRA1B2

PRA1 family protein B2

 BnaA08g24190Db

#13

274.89

1.63

2.80

1.19

1.59

10.52

4.34

1.44

1.20

–

–

 BnaC02g14450Db

#15

92.11

2.23

0.00

0.86

1.19

85.14

0.04

0.55

1.62

AGP22

Arabinogalactan peptide 22

 BnaC03g26110Db

S22

59.91

20.84

8.96

13.42

18.16

44.32

19.22

17.27

12.82

F4P13.7

Universal stress protein A-like protein

 BnaA06g37280Dc

#11

28.60

5.36

5.99

5.64

4.03

16.82

5.83

4.99

4.92

BPC5

Protein basic pentacysteine5

 BnaA07g02950Dc

#12

253.94

1.35

0.72

2.20

4.45

6.65

1.41

2.66

4.18

TIM14-3

Mitochondrial import inner membrane translocase subunit

 BnaA09g07580Dc

S10

183.41

2.15

5.44

3.24

3.15

18.16

11.78

2.75

2.20

RALFL34

Protein RALF-like 34

 BnaC02g14330Dc

#15

26.80

2.86

31.35

35.15

7.11

102.64

35.21

21.90

7.83

–

–

Lightyellow

 BnaA10g23820Db

S17

133.94

3.46

7.57

6.16

7.00

7.91

27.73

15.74

10.48

IPK2a

Inositol polyphosphate multikinase alpha

  1. aCandidate gene overlapped by WGCNA, GWAS and DEGs
  2. bCandidate gene overlapped by WGCNA and GWAS
  3. cCandidate gene overlapped by GWAS and DEGs
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