Table 1.
Selection of differentially expressed genes in vtc2-5 tissues compared with WT levels across somatic embryogenesis in Arabidopsis thaliana
| Zygotic embryos | Day 14 induction (cont.) | ||||
|---|---|---|---|---|---|
| Gene | Name | Fold change | Gene | Name | Fold change |
| AT4G38680 | GRP2 (Cold-shock domain protein) | 12.75 | AT2G26400 | ARD (Acireductone dioxygenase) | 3.07 |
| AT2G21660 | ATGRP7 (Cold, circadian rhythm) | 4.90 | AT5G51470 | Auxin-responsive GH3 family protein | 3.00 |
| AT4G39260 | ATGRP8 (Cold, circadian rhythm) | 4.20 | AT4G34520 | FAE1 (Fatty acid elongation) | 2.74 |
| AT2G35840 | sucrose-phosphatase 1 (SPP1) | 2.73 | AT3G56400 | WRKY70 (WRKY DNA-binding protein 70) | 2.65 |
| AT4G17090 | BAM8 (β-amylase 8) | 2.63 | AT4G08780 | Peroxidase superfamily protein | 2.37 |
| AT4G15210 | BAM5 (β-amylase 5) | 2.04 | AT5G10100 | Trehalose-6-phosphate phosphatase, putative | 2.31 |
| AT1G19640 | JMT (JA carboxyl methyltransferase) | –2.68 | AT5G49190 | SUS2 (Sucrose synthase 2) | 2.13 |
| AT4G30960 | CIPK6 (CBL-interacting protein kinase) | 2.56 | AT5G66700 | ATHB53 (Homeobox-53) | 2.06 |
| AT5G42180 | PER64 (Peroxidase 64) | –4.75 | AT3G22490 | LEA (Late embryogenesis abundant protein) | –2.02 |
| AT2G48130 | LTP (Lipid transfer protein) | –4.88 | AT1G56600 | GOLS2 (Galactinol synthase 2) | –2.36 |
| AT1G19900 | Glyoxal oxidase-related | –7.00 | AT5G17220 | GSTF12 (Glutathione S-transferase) | –2.40 |
| AT4G26850 | VTC2 (Vitamin C defective 2) | –11.71 | AT2G44460 | Glycosyl hydrolase family 1 protein | –2.91 |
| AT2G23540 | GDSL-motif lipase/hydrolase family protein | –12.76 | AT3G60140 | SEN2 (Dark inducible 2) | –3.38 |
| AT4G38080 | Hydroxyproline-rich glycoprotein family | –16.12 | AT4G26850 | VTC2 (Vitamin C defective 2) | –26.06 |
| Day 7 induction | Mature somatic embryos | ||||
| Gene | Name | Fold change | Gene | Name | Fold change |
| AT5G63660 | LCR74 (Low-weight cysteine-rich 74) | 8.89 | AT5G38170 | LTP (lipid transfer protein) family protein | 59.02 |
| AT4G09940 | AIG1 (Avirulence induced gene) | 6.29 | AT1G31580 | ECS1 (Glutamate-cysteine ligase) | 26.96 |
| AT3G43190 | SUS4 (Sucrose synthase 4) | 5.89 | AT2G34870 | MEE26 (Maternal effect embryo arrest 26) | 11.80 |
| AT4G08770 | Peroxidase, putative | 5.72 | AT5G27200 | ACP5 (Acyl carrier protein 5) | 10.99 |
| AT3G23000 | CIPK7 (CBL-interacting protein kinase 7) | 5.46 | AT1G22590 | MADS-box family protein | 10.60 |
| AT3G05890 | RCI2B (Rare-cold inducible 2B) | 4.40 | AT5G59320 | LTP3 (Lipid transfer protein 3) | 9.87 |
| AT4G33560 | ETR2 (Ethylene response 2) | 4.33 | AT4G35770 | SEN1 (Dark inducible 1) | 8.62 |
| AT1G70290 | TPS8 (Trehalose phosphatase /synthase 8) | 3.98 | AT1G74670 | Gibberellin-responsive protein, putative | 8.12 |
| AT5G23020 | 2-Isopropylmalate synthase | 3.98 | AT3G62550 | Universal stress protein (USP) family protein | 7.08 |
| AT5G58750 | Wound-responsive protein-related | 3.62 | AT5G26000 | TGG1 (Thioglucoside dehydrolase 1) | 6.87 |
| AT1G52150 | ATHB15 (Homeobox-15) | 2.70 | ATCG00020 | Photosystem II reaction centre core component | 6.70 |
| AT5G66700 | ATHB53 (Homeobox-53) | 2.58 | AT4G17490 | ERF6 (Ethylene-responsive element binding 6) | 5.73 |
| AT2G17870 | Cold-shock DNA-binding family protein | 2.51 | ATCG01060 | PsaC subunit of photosystem I. | 5.26 |
| AT5G20830 | SUS1 (Sucrose synthase 1) | 2.48 | AT2G38470 | WRKY33 (WRKY DNA-binding protein 33) | 5.07 |
| AT2G22420 | ERS2 (Ethylene response sensor 2) | 2.47 | AT5G18600 | Glutaredoxin family protein | 4.89 |
| AT1G20440 | COR47 (Cold regulated 47) | 2.33 | AT4G23810 | WRKY53 (WRKY DNA-binding protein 53) | 4.83 |
| AT2G22420 | PER17 (Peroxidase 17) | 2.25 | AT5G01870 | Lipid transfer protein, putative | 4.77 |
| AT5G65310 | ATHB5 (Homeobox-5) | 2.22 | AT3G56400 | WRKY70 (WRKY DNA-binding protein 70) | 4.74 |
| AT5G10100 | Trehalose-6-phosphate phosphatase, putative | 2.06 | AT2G46400 | WRKY46 (WRKY DNA-binding protein 46) | 4.46 |
| AT2G38470 | WRKY33 (WRKY DNA-binding protein 33) | –2.14 | AT5G49190 | SUS2 (Sucrose synthase 2) | 4.43 |
| AT5G10140 | FLC (Flowering locus C) | –2.35 | ATCG00140 | ATPase subunit | 4.10 |
| AT3G23250 | MYB15 (Myb domain protein 15) | –2.83 | AT3G51600 | LTP5 (Lipid transfer protein 5) | 4.08 |
| AT5G49190 | SUS2 (Sucrose synthase 2) | –3.40 | AT3G25760; 70 | AOC1; AOC2 (Allene oxide cyclase 1 and 2) | 4.08 |
| AT4G34520 | FAE1 (Fatty acid elongation) | –3.68 | AT1G06080 | ADS1 (Delta 9 desaturase 1) | 3.57 |
| AT3G26790 | FUS3 | –3.99 | AT5G47230 | ERF5 (Ethylene-responsive element binding 5) | 3.42 |
| AT5G45830 | DOG1 (Delay of germination 1) | –4.56 | AT5G23940 | EMB3009 (Embryo defective 3009) | 3.30 |
| AT3G22490 | LEA (Late embryogenesis abundant protein) | –4.95 | AT1G05010 | EFE (Ethylene forming enzyme) | 3.29 |
| AT5G57550 | XTR3 (Xyloglucan endotransglycosylase 3) | –5.88 | AT3G23250 | MYB15 (Myb domain protein 15) | 3.11 |
| AT3G25760; 70 | AOC1; AOC2 (Allene oxide cyclase 1 and 2) | –8.72 | ATCG00160 | Chloroplast ribosomal protein S2 | 2.95 |
| AT4G26850 | VTC2 (Vitamin C defective 2) | –37.97 | AT1G19610 | LCR78 (Low-weight cysteine-rich 78) | 2.81 |
| Day 14 induction | AT4G15210 | BAM5 (β-amylase 5) | 2.50 | ||
| Gene | Name | Fold change | AT1G53885 | Senescence-associated protein-related | |
| AT5G38170 | LTP (lipid transfer protein) family protein | 6.57 | AT4G17090 | BAM8 (β-amylase 8) | 2.34 |
| ATCG00680 | CP47(Subunit of photosystem II) | 5.64 | AT1G21970 | LEC1 (Leafy cotyledon 1) | 2.07 |
| ATCG00430 | Subunit K of NADH dehydrogenase | 4.70 | AT1G52150 | ATHB15 (Homeobox-15) | –2.03 |
| ATCG01060 | PsaC subunit of photosystem I. | 4.18 | AT3G51770 | ETO1 (Ethylene overproducer 1) | –2.09 |
| ATCG00140 | ATPase subunit | 4.01 | AT2G44460 | Glycosyl hydrolase family 1 protein | –2.18 |
| ATCG00490 | Large subunit of RUBISCO. | 3.69 | AT1G80410 | EMB2753 (Embryo defective 2753) | –2.41 |
| AT2G34870 | MEE26 (Maternal effect embryo arrest 26) | 3.59 | AT3G22490 | LEA (Late embryogenesis abundant protein) | –2.66 |
| AT1G06080 | ADS1 (Delta 9 desaturase 1) | 3.39 | AT4G26850 | VTC2 (Vitamin C defective 2) | –35.42 |
| ATCG00330 | 30S Chloroplast ribosomal protein | 3.37 | |||