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Table 2 Identification of down-regulated DEGs at initial (May) and rapid (July) thickening stages of P. notoginseng taproots

From: Comparative transcriptome and metabolome analyses provide new insights into the molecular mechanisms underlying taproot thickening in Panax notoginseng

ID

Description

TAIR ID

RPKM

Mar

May

Jul

Nov

Signal transduction and transcription

 Unigene0046518

AP2/ERF domain-containing transcription factor DREB1D

AT5G51190

187.6

52.7

23.5

23.2

 Unigene0019102

Ethylene-responsive transcription factor 2-like

AT4G17500

312.9

103.8

47.3

50.4

 Unigene0036608

Auxin-responsive protein IAA7-like

AT3G23050

253.7

94.7

47.3

30.3

 Unigene0039183

60 kDa jasmonate-induced protein-like

/

132.9

50.8

13.2

16.0

 Unigene0018277

Calcium-binding protein PBP1-like

AT5G54490

107.9

50.6

19.4

19.6

 Unigene0017010

Snakin-2-like

AT1G75750

152.6

60.2

16.9

9.0

 Unigene0000195

Organ-specific protein S2-like

/

5774.5

2708.3

893.4

680.4

 Unigene0024355

Organ-specific protein S2-like

/

2221.2

1084.2

307.9

264.8

 Unigene0072131

ROTUNDIFOLIA like 7

AT3G55515

56.8

26.1

12.3

10.9

 Unigene0053253

DUF793 domain-containing protein

AT1G01550

317.4

63.1

21.8

25.3

 Unigene0020203

F-box protein

AT2G27310

283.0

99.5

43.6

42.7

 Unigene0027395

Small ubiquitin-related modifier 2-A-like

AT5G55170

967.4

239.5

96.2

199.8

 Unigene0035890

Lectin protein kinase family protein

AT5G24080

83.8

40.0

14.9

11.1

Stress/defense response

 Unigene0035676

Metallothionein-like protein 1

AT3G09390

991.4

287.2

97.9

192.2

 Unigene0029269

Cysteine protease XCP2

AT1G20850

72.0

35.3

12.6

8.9

 Unigene0027617

Pathogenesis-related protein 2

/

273.6

46.2

12.8

8.8

 Unigene0020874

Metallothiol transferase FosB

/

62.9

26.3

13.0

13.5

 Unigene0038257

Isocitrate dehydrogenase

AT1G65930

127.3

63.6

27.5

14.6

Lipid metabolism

 Unigene0039640

Delta(12)-fatty-acid desaturase FAD2-like

AT3G12120

100.5

44.8

20.2

7.6

 *Unigene0010076

Delta(12)-fatty-acid desaturase FAD2-like

AT3G12120

188.0

68.9

28.5

12.5

 *Unigene0053831

Delta(12) fatty acid desaturase FAD2-like

AT3G12120

686.0

327.6

113.8

53.0

 *Unigene0014051

Delta(12)-fatty-acid desaturase FAD2-like

AT3G12120

438.8

215.2

77.5

25.0

 Unigene0030153

Delta(12)-fatty-acid desaturase FAD2-like

AT3G12120

325.8

118.2

49.0

26.8

 Unigene0070830

PI-PLC X-box domain-containing protein DDB_G0293730

AT4G38690

68.3

32.5

15.9

10.4

 Unigene0036376

DUF563 domain-containing protein

AT2G41640

97.6

45.9

14.2

13.8

 *Unigene0041208

CDP-diacylglycerol-glycerol-3-phosphate3-phosphatidyltransferase

AT3G48180

182.8

82.5

31.1

15.0

 Unigene0022367

EXORDIUM-like 5

AT2G17230

156.7

70.4

14.6

28.3

 Unigene0008870

GDSL-like Lipase/Acylhydrolase superfamily protein

AT3G26430

871.2

395.8

98.1

122.2

Secondary metabolism

 Unigene0034152

GBR5

/

2635.8

1186.3

411.3

465.4

 Unigene0033007

Peroxidase 5-like

AT1G05260

219.3

40.2

15.8

29.5

 Unigene0027454

Cytochrome P450 CYP72A219-like

AT3G14630

91.4

23.7

11.1

14.3

 Unigene0045855

Caffeoyl-CoA O-methyltransferase

AT4G34050

219.5

76.9

37.6

27.5

 Unigene0026392

Polyphenol oxidase

/

427.5

135.0

14.7

7.5

 Unigene0040370

Shikimate O-hydroxycinnamoyltransferase-like

AT5G48930

87.1

38.5

12.1

8.4

 Unigene0032140

Protein WALLS ARE THIN 1-like

AT1G75500

205.6

40.0

19.1

26.1

Cell wall metabolism

 Unigene0010296 Extensin-2-like

/

183.0

88.0

15.5

9.7

 Unigene0038129 Extensin-3-like

AT3G09925

414.7

162.1

12.0

9.5

Transporter

 Unigene0054315

Copper-transporting ATPase RAN1-like (HMA7)

AT5G44790

58.1

25.9

12.2

26.3

 Unigene0031786

High-affinity nitrate transporter 3.1-like

AT5G50200

290.4

58.0

21.4

29.0

 Unigene0026653

Aquaporin TIP2–2

AT4G17340

578.2

166.1

26.4

56.6

 Unigene0028381

Nodulin MtN21-like transporter family protein At5g07050-like

AT5G07050

55.2

26.5

11.2

12.1

Undefined

 Unigene0020809

Uncharacterized protein LOC108212493

AT2G47485

307.8

25.5

11.5

9.9

 Unigene0025188

BnaC05g08810D [Brassica napus]

AT1G13360

128.0

44.2

13.0

23.4

 Unigene0014035

Formin-like protein 18

AT1G10020

205.9

46.5

18.0

22.9

 Unigene0047041

Plant organelle RNA recognition domain-containing protein

AT1G57680

136.9

67.3

32.8

95.6

 Unigene0063477

Serine/arginine repetitive matrix protein 1

AT4G02040

59.9

25.4

11.6

14.1

 Unigene0029630

Pyridoxal phosphate-dependent transferase

AT5G51920

74.9

29.1

13.1

10.7

  1. * Asterisk indicates down-regulated DEGs among initial (May), rapid (July) and stable (November) thickening stages of P. notoginseng taproots