Table II.
Genes preferentially expressed in the locular tissue
| Clone IDb
|
Accession No.
|
SGNa
|
Annotationc
|
FoldChange L/Ed
|
Adjusted P Valuee
|
|
|---|---|---|---|---|---|---|
| Identifier | E Value | |||||
| Cell cycle and DNA processing: cell cycle | ||||||
| CDKB2 | AJ297917 | U225483 | 0.0 | B2-type cyclin dependent kinase | 2.33 | 1.36E-03 |
| Cell cycle and DNA processing: DNA processing | ||||||
| cLEX11N17 | AW621342 | U224740 | 0.0 | Minichromosome maintenance 7 | 1.68 | 2.00E-04 |
| PBV1F01 | AW429173 | U214722 | 0.0 | Histone H4 | 2.39 | 1.84E-03 |
| Cell fate: growth regulators/regulation of cell size | ||||||
| cLED4L11 | AI485554 | U218137 | 0.0 | Spindly petunia | 1.84 | 4.55E-04 |
| LE12DH08 | AJ785277 | U239606 | 0.0 | IAA-amino acid hydrolase 1 | 2.01 | 1.90E-04 |
| cLER7E24 | AI773528 | U222172 | 0.0 | IAA-amino acid hydrolase | 6.56 | 1.37E-04 |
| LE12BA10 | AJ832000 | U214745 | 3.0E-130 | Zeatin O-glucosyltransferase | 1.74 | 1.59E-03 |
| cLES14P11 | AI781149 | U226448 | 1.2E-63 | Gibberellin 20-oxidase-1 | 4.46 | 7.07E-05 |
| Cell rescue defense and virulence: disease, virulence, and defense | ||||||
| LE08CD10 | AJ784602 | U236605 | 6.2E-63 | Meloidogyne-induced giant cell protein | 12.52 | 6.23E-05 |
| Cell rescue defense and virulence: stress response | ||||||
| LE08BH07 | AJ784566 | U212640 | 0.0 | Heat shock cognate protein 80 | 2.15 | 2.48E-03 |
| LE12BD08 | AJ785100 | U216966 | 0.0 | Wound-induced protein Sn-1 | 2.97 | 1.63E-04 |
| LE15CB10 | AJ785456 | U213892 | 0.0 | Aluminium induced protein | 3.17 | 1.35E-03 |
| LE08DE07 | AJ784680 | U217567 | 0.0 | Osmotin-like protein | 8.98 | 3.99E-06 |
| LE12BA07 | AJ785076 | U234306 | 0.0 | Calmodulin-binding heat shock protein | 1.69 | 3.45E-04 |
| Cellular communication/signal transduction mechanism: intracellular signaling | ||||||
| cLED6E18 | AI486576 | U217063 | 0.0 | MYB8 protein | 2.45 | 3.99E-05 |
| cLED26G15 | AI897007 | U235872 | 0.0 | bZIP50 protein | 2.70 | 1.37E-04 |
| LE15AC09 | AJ785325 | U213708 | 0.0 | bZIP DNA-binding protein | 4.43 | 9.49E-05 |
| LE08EE01 | AJ784741 | U213473 | 0.0 | Leu zipper-containing protein | 4.54 | 5.87E-05 |
| LE12CD07 | AJ785174 | U229573 | 0.0 | ZFHD-homeobox protein | 3.59 | 4.15E-03 |
| MO5_3G16_6 | AJ831478 | U213820 | 1.0E-136 | Mitogen-activated protein kinase MMK2 | 2.66 | 4.79E-03 |
| Classification not yet clear | ||||||
| cLED30N18 | AI897870 | U213316 | 0.0 | Pro-rich protein | 4.21 | 6.88E-06 |
| LE12AC05 | AJ785026 | U215643 | 0.0 | Nucleoid DNA binding protein (chloroplastic) | 8.06 | 1.84E-04 |
| Control of cellular organization: cell wall | ||||||
| LE08DB03 | AJ784648 | U221840 | 0.0 | Polygalacturonase | 2.43 | 1.00E-05 |
| Control of cellular organization: cytoskeleton | ||||||
| cLED5D5 | AI486189 | U218801 | 0.0 | Microtubule-associated protein MAP65 | 1.81 | 1.03E-03 |
| Control of cellular organization: endoplasmic reticulum | ||||||
| LE12AD12 | AJ785042 | U222488 | 0.0 | Endoplasmic reticulum lumen protein retaining receptor | 1.92 | 5.77E-05 |
| Energy: electron transport and membrane-associated energy conservation | ||||||
| LE12BE11 | AJ785110 | U212982 | 0.0 | Cytochrome P450 | 3.28 | 2.19E-03 |
| LE12CA10 | AJ785145 | U233399 | 1.0E-144 | Cytochrome P450 | 2.79 | 7.74E-05 |
| LE08DA02 | AJ784638 | U212714 | 0.0 | Ferredoxin-I | 2.04 | 2.07E-06 |
| Energy: fermentation | ||||||
| LE08BC01 | AJ784523 | U232963 | 1.9E-29 | Alcohol dehydrogenase | 2.44 | 9.88E-05 |
| LEECp10-3 | AJ832084 | U214593 | 1.0E-114 | Alcohol dehydrogenase | 3.59 | 3.83E-05 |
| Energy: glycolysis and gluconeogenesis | ||||||
| LePPC1 | AJ243416 | U214321 | 0.0 | Phosphoenolpyruvate carboxylase 1 | 3.56 | 2.07E-06 |
| LE15BH07 | AJ785437 | U214321 | 3.0E-125 | Phosphoenolpyruvate carboxylase 2 | 2.95 | 4.00E-05 |
| cLED24K5 | AI490644 | U219468 | 0.0 | PEP carboxylase-related protein 3 | 2.86 | 4.35E-04 |
| Energy: photosynthesis | ||||||
| LE08EH04 | AJ784768 | U212743 | 0.0 | Oxygen-evolving enhancer protein 1 (chloroplastic) | 1.88 | 1.90E-04 |
| cLEI6J23 | AW648964 | U215938 | 0.0 | Pyruvate phosphate dikinase (chloroplastic) | 2.71 | 9.68E-04 |
| LE08CC01 | AJ784584 | U213031 | 0.0 | Plastocyanin (chloroplastic) | 1.96 | 2.66E-07 |
| LE08AE04 | AJ784469 | U213039 | 0.0 | Chlorophyll a/b-binding protein CP29 | 1.98 | 7.51E-05 |
| LE15AA07 | AJ785300 | U212697 | 0.0 | Chlorophyll a/b-binding protein | 2.54 | 4.93E-04 |
| LE08AF03 | AJ784476 | U212742 | 0.0 | Oxygen-evolving enhancer protein (chloroplastic) | 2.50 | 2.14E-05 |
| LE08DA10 | AJ784645 | U213105 | 0.0 | Chlorophyll a/b-binding protein | 3.50 | 1.47E-05 |
| LE15AG07 | AJ785360 | U213041 | 0.0 | Chlorophyll a/b-binding protein | 3.91 | 3.88E-07 |
| LEEaA1-4 | AJ832091 | U212863 | 3.0E-109 | Chlorophyll a/b-binding protein of light-harvesting complex II type I | 5.55 | 2.10E-05 |
| LE15AE04 | AJ785338 | U218914 | 0.0 | Chlorophyll a/b-binding protein | 10.08 | 1.45E-06 |
| Metabolism: amino acid metabolism | ||||||
| LE08CB02 | AJ784576 | U212860 | 0.0 | Thr deaminase chloroplastic | 2.10 | 3.46E-05 |
| LE15BH02 | AJ785432 | U216858 | 0.0 | Dehydroquinate synthase | 1.80 | 1.03E-03 |
| cLED2M7 | AI486042 | U221579 | 0.0 | Anthranilate phosphoribosyltransferase | 1.66 | 1.14E-03 |
| Metabolism: nitrogen and sulfur metabolism | ||||||
| LE08AF10 | AJ784483 | U215649 | 0.0 | Steroid sulfotransferase | 2.61 | 8.15E-06 |
| Metabolism: compound and carbohydrate metabolism | ||||||
| LE08AF02 | AJ784475 | U225512 | 1.0E-135 | Rubisco, small subunit | 1.66 | 2.69E-04 |
| LEEaA3-1 | AJ832092 | U225534 | 1.0E-104 | Rubisco, small subunit | 1.74 | 4.22E-03 |
| cLED21P10 | AI490453 | U216862 | 0.0 | LeLIN5 cell wall invertase | 1.73 | 2.54E-05 |
| MO7_10T2_4 | AJ831483 | U212903 | 2.0E-119 | Vacuolar invertase | 9.82 | 1.13E-05 |
| cLED24i21 | AI483400 | U216715 | 0.0 | Invertase Inhibitor | 1.98 | 2.45E-04 |
| cLED5N5 | AI486229 | U218220 | 0.0 | Starch phosphorylase | 1.75 | 6.73E-04 |
| Metabolism: lipid, fatty acid, and isoprenoid metabolism | ||||||
| LEEA3-1 | AJ832060 | U214114 | 0.0 | Epoxide hydrolase | 2.09 | 1.98E-05 |
| cLEN15E17 | AW441298 | U212777 | 0.0 | Lipoxygenase | 6.08 | 1.01E-04 |
| cLPT8I1 | AW399592 | U217409 | 0.0 | HMGR CoA reductase | 8.28 | 1.46E-07 |
| PTOX | AF177980 | U218630 | 0.0 | Plastid terminal oxidase | 1.81 | 1.40E-03 |
| Metabolism: metabolism of vitamins, cofactors, and prosthetic groups | ||||||
| LE08CE12 | AJ784611 | U213738 | 0.0 | GSH-dependent dehydroascorbate reductase | 2.29 | 2.82E-04 |
| Metabolism: secondary metabolism | ||||||
| LE08AD10 | AJ784465 | U230863 | 0.0 | 1,4-benzoquinone reductase | 2.95 | 6.88E-06 |
| Protein fate (folding, modification, and destination) | ||||||
| LE12BH02 | AJ785130 | U213337 | 0.0 | Metallocarboxypeptidase inhibitor | 3.53 | 7.04E-05 |
| LeVPE1-7 | AJ243876 | U217676 | 0.0 | Vacuolar processing enzyme (VPEγ) | 7.05 | 2.14E-05 |
| LE08DE04 | AJ784677 | No hit | – | Ser carboxypeptidase II-like | 2.43 | 2.15E-05 |
| LEEbB6-1 | AJ832099 | U224513 | 0.0 | Cyclophilin | 2.29 | 3.77E-04 |
| LE15CC04 | AJ785460 | U242133 | 0.0 | Subtilisin-like Ser protease | 7.33 | 4.73E-04 |
| LE12DA07 | AJ785217 | U213211 | 0.0 | Cys endopeptidase | 4.41 | 2.82E-04 |
| Storage protein | ||||||
| mo6-MgT2-1 | AJ270964 | U215172 | 1.0E-108 | Vicilin | 25.53 | 7.72E-05 |
| LE15BG07 | AJ785426 | U214940 | 0.0 | Legumin precursor | 69.59 | 3.01E-06 |
| Subcellular localization | ||||||
| LE12AD09 | AJ785040 | U215827 | 0.0 | Outer membrane lipoprotein | 4.61 | 4.73E-04 |
| Systemic regulation of/interaction with environment | ||||||
| LE08AE10 | AJ784474 | U213616 | 0.0 | Auxin repressed protein | 2.73 | 1.53E-05 |
| LE08EG11 | AJ784766 | U214220 | 0.0 | Auxin responsive protein | 4.39 | 2.33E-05 |
| cLEI2G22 | AW647801 | U226470 | 0.0 | PIN7-like Auxin transport protein | 4.20 | 4.73E-04 |
| cLED19H14 | AI487976 | U220722 | 0.0 | AXR1 RUB1-E1-activating | 1.95 | 6.49E-04 |
| cLEN17N15 | AW441576 | U220580 | 0.0 | AXR1 RUB1-E1-activating | 1.62 | 6.49E-04 |
| cLED16G4 | AI489353 | U214220 | 0.0 | Aux/IAA protein | 4.30 | 3.40E-06 |
| LE15AC12 | AJ785327 | U213952 | 0.0 | Cell differentiation protein RCD1 | 1.68 | 2.27E-03 |
| LE15DE02 | AJ785537 | U217589 | 0.0 | Rho GDP-dissociation inhibitor 1 | 1.63 | 2.04E-04 |
| Transcription: mRNA transcription | ||||||
| LE08BF01 | AJ784548 | No hit | – | RNA polymerase II largest subunit | 1.73 | 5.51E-04 |
| Transport facilitation | ||||||
| LE08AC10 | AJ784459 | U212568 | 4.0E-152 | Aquaporin PIP-type TRAMP | 2.88 | 5.94E-06 |
| LE12DE07 | AJ785248 | U214295 | 0.0 | Tonoplast intrinsic protein (δTIP) | 2.76 | 2.34E-04 |
| LE12DH11 | AJ785280 | U213272 | 0.0 | γTIP | 7.58 | 6.65E-07 |
| LE12AE02 | AJ785044 | U215949 | 0.0 | Plasma membrane intrinsic protein | 2.02 | 9.45E-05 |
| LE12DC03 | AJ785232 | No hit | – | Ycf1 | 1.67 | 2.69E-03 |
| Protein of unknown function | ||||||
| LE15BG11 | AJ785430 | U224778 | 0.0 | Unknown function | 34.99 | 2.85E-05 |
| LE15CG06 | AJ785499 | U225059 | 0.0 | Unknown function | 10.17 | 3.37E-05 |
| LE08CF01 | AJ784612 | U215776 | 0.0 | Unknown function | 9.30 | 1.46E-07 |
| LE15DB03 | AJ785518 | U231609 | 0.0 | Unknown function | 5.79 | 4.11E-04 |
| LE12AB10 | AJ785020 | U239000 | 0.0 | Unknown function | 5.74 | 4.06E-05 |
| LEEBp4-1 | AJ832080 | U215120 | 1.3E-73 | Unknown function | 4.05 | 1.31E-04 |
| LEEDp3-1 | AJ832087 | U214474 | 2.1E-81 | Unknown function | 3.66 | 1.35E-05 |
| LE12AA03 | AJ785007 | U218722 | 0.0 | Unknown function | 3.64 | 2.18E-06 |
| LE15AF02 | AJ785347 | U214236 | 0.0 | Unknown function | 3.55 | 1.48E-05 |
| LED83 | AJ831585 | U218518 | 0.0 | Unknown function | 2.87 | 3.63E-04 |
| LE08DF10 | AJ784689 | U235233 | 1.5E-08 | Unknown function | 2.82 | 5.25E-04 |
| LE12DC05 | AJ785233 | U218142 | 7.0E-176 | Unknown function | 2.20 | 2.26E-03 |
| LE08DH03 | AJ784699 | No hit | – | Unknown function | 1.69 | 1.45E-03 |
| LE08EA02 | AJ784706 | U224380 | 0.0 | Unknown function | 1.68 | 5.67E-04 |
| LE12DB03 | AJ785222 | U217461 | 0.0 | Unknown function | 1.64 | 2.00E-04 |
| Hypothetical protein | ||||||
| LE15BB12 | AJ785386 | U227260 | 0.0 | Hypothetical protein | 2.72 | 9.82E-04 |
| LE08AG05 | AJ784489 | U220976 | 0.0 | Hypothetical protein | 2.28 | 6.14E-06 |
| LE08AB03 | AJ784448 | U220987 | 5.0E-175 | Hypothetical protein | 2.17 | 2.56E-05 |
| LE08CG01 | AJ784620 | No hit | – | Hypothetical protein | 1.76 | 5.67E-04 |
| LE08CD02 | AJ784596 | U218544 | 0.0 | Hypothetical protein | 1.70 | 8.84E-04 |
| LE15AF03 | AJ785348 | U231894 | 0.0 | Hypothetical protein | 1.70 | 1.98E-03 |
| LE15DC03 | AJ785527 | U236020 | 1.0E-127 | Hypothetical protein | 1.64 | 3.91E-04 |
| No homology | ||||||
| LE08BA02 | AJ784504 | No hit | – | – | 27.00 | 3.15E-06 |
| LE15CF01 | AJ785485 | No hit | – | – | 1.87 | 9.31E-05 |
| LE15BB07 | AJ785383 | No hit | – | – | 1.75 | 3.33E-03 |
a
SGN identification number of the best BLAST hit in the SGN tomato EST database, if any, and corresponding expect value.
b
Clone ID in the EMBL or TIGR tomato EST databases.
c
Putative function and classification into functional categories according to MIPS (http://www.mips.biochem.mpg.de/).
d
Mean ratio of the normalized data between exocarp (E) and locular tissue (L).
e
Probability of the t test.