Skip to main content

Table 3 Significant pathways and proportions after KEGG (Kyoto Encyclopedia of Genes and Genomes) analysis of differentially expressed genes in the root and shoot (Q ≤ 0.05)

From: Integrated analysis of miRNA and mRNA expression profiles in response to Cd exposure in rice seedlings

Number

Pathway

DEGs with pathway annotation (866)

All genes with pathway annotation (28280)

P-value

Q-value

Pathway ID

R-1

Plant hormone signal transduction

94 (10.85%)

1560 (5.52%)

2.84E-10

3.15E-08

ko04075

R-2

Phenylpropanoid biosynthesis

48 (5.54%)

596 (2.11%)

1.43E-09

7.93E-08

ko00940

R-3

Glutathione metabolism

23 (2.66%)

193 (0.68%)

3.02E-08

1.12E-06

ko00480

R-4

Phenylalanine metabolism

27 (3.12%)

279 (0.99%)

1.60E-07

4.45E-06

ko00360

R-5

Stilbenoid, diarylheptanoid and gingerol biosynthesis

28 (3.23%)

346 (1.22%)

3.46E-06

7.69E-05

ko00945

R-6

Isoflavonoid biosynthesis

16 (1.85%)

139 (0.49%)

5.89E-06

1.09E-04

ko00943

R-7

Limonene and pinene degradation

21 (2.42%)

228 (0.81%)

8.07E-06

1.28E-04

ko00903

R-8

Protein processing in endoplasmic reticulum

39 (4.5%)

614 (2.17%)

1.70E-05

2.24E-04

ko04141

R-9

Diterpenoid biosynthesis

20 (2.31%)

222 (0.79%)

1.82E-05

2.24E-04

ko00904

R-10

ABC transporters

20 (2.31%)

255 (0.9%)

0.000127

1.42E-03

ko02010

R-11

Flavonoid biosynthesis

23 (2.66%)

351 (1.24%)

0.00057

5.75E-03

ko00941

R-12

Brassinosteroid biosynthesis

9 (1.04%)

81 (0.29%)

0.000826

7.64E-03

ko00905

R-13

Galactose metabolism

13 (1.5%)

155 (0.55%)

0.001002

8.56E-03

ko00052

R-14

Biosynthesis of secondary metabolites

166 (19.17%)

4372 (15.46%)

0.001623

1.29E-02

ko01110

R-15

alpha-Linolenic acid metabolism

13 (1.5%)

170 (0.6%)

0.002303

1.70E-02

ko00592

R-16

Alanine, aspartate and glutamate metabolism

10 (1.15%)

118 (0.42%)

0.003429

2.34E-02

ko00250

R-17

Glycosylphosphatidylinositol(GPI)-anchor biosynthesis

14 (1.62%)

200 (0.71%)

0.003586

2.34E-02

ko00563

R-18

Carotenoid biosynthesis

18 (2.08%)

294 (1.04%)

0.004432

2.73E-02

ko00906

R-19

Amino sugar and nucleotide sugar metabolism

19 (2.19%)

329 (1.16%)

0.006526563

3.81E-02

ko00520

S-1

Ribosome

35 (5.46%)

542 (1.92%)

3.69E-08

3.80E-06

ko03010

S-2

Carotenoid biosynthesis

17 (2.65%)

294 (1.04%)

0.000435344

2.24E-02

ko00906