Table 2.
Identification of down-regulated DEGs at initial (May) and rapid (July) thickening stages of P. notoginseng taproots
| 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 |
* Asterisk indicates down-regulated DEGs among initial (May), rapid (July) and stable (November) thickening stages of P. notoginseng taproots