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Table 1 Enriched expression of genes in the embryo sac cells was distinguished by their absence of detectable expression in sporophytic and pollen transcriptomes

From: Genetic subtraction profiling identifies genes essential for Arabidopsisreproduction and reveals interaction between the female gametophyte and the maternal sporophyte

     Orthologous Zm ESTc
Gene ID Gene description Studya Homology to At siliques transcriptomeb ES Egg CC and EN
Transcriptional Regulation
   At5g06070 Zinc Finger (C2H2 Type) Family Protein (RBE) 2 0 0 0 0
   At1g75430 Homeodomain Protein 1 0 0 0 0
   At2g01500 Homeodomain-Leucine Zipper (WOX6, PFA2) 1 0 0 0 1
   At2g24840 MADS-Box Protein Type I (AGL61) 2 0 1 1 1
   At1g02580 MEDEA (MEA) 2 0 0 1 1
   At5g11050 MYB Transcription Factor (MYB64) 1, 2 0 0 0 1
   At3g29020 MYB Transcription Factor (MYB110) 2 0 0 0 1
   At5g35550 MYB Transcription Factor (MYB123) (TT2) 2 1 0 0 1
   At4g18770 MYB Transcription Factor (MYB98) 2 0 0 0 1
Core Signaling Pathways
   At5g12380 Annexin 2 0 1 1 1
   At2g20660 Rapid Alkalinization Factor (RALF) 2 0 0 0 0
RNA Synthesis And Modification
   At1g63070 PPR Repeat-Containing Protein 1 0 0 0 1
   At2g20720 PPR Repeat-Containing Protein 1 0 0 0 0
   At3g54490 RPB5 RNA Polymerase Subunit 2 0 1 1 1
Protein Synthesis And Modification
   At5g11360 Protein Involved in Amino Acid Phosphorylation 2 1 1 0 0
   At4g15040 Subtilase Family Protein, Proteolysis 2 0 1 1 1
   At5g58830 Subtilase Family Protein, Proteolysis 2 1 0 1 1
   At1g36340 Ubiquitin-Conjugating Enzyme 2 1 1 1 1
Enzymes And Metabolism
   At3g30540 (1-4)-Beta-Mannan Endohydrolase Family 2 0 0 0 0
   At1g47780 Acyl-Protein Thioesterase-Related 2 0 1 0 0
   At1g31450 Aspartyl Protease Family Protein 2 0 1 1 1
   At1g69100 Aspartyl Protease Family Protein 2 0 0 1 1
   At2g28010 Aspartyl Protease Family Protein 2 0 0 1 1
   At2g34890 CTP Synthase, UTP-Ammonia Ligase 2 1 1 0 1
   At4g39650 Gamma-Glutamyltransferase 2 1 0 0 0
   At4g30540 Glutamine Amidotransferase 2 0 0 0 1
   At3g48950 Glycoside Hydrolase Family 28 Protein 2 1 0 1 1
   At2g42930 Glycosyl Hydrolase Family 17 Protein 2 0 1 1 1
   At4g09090 Glycosyl Hydrolase Family 17 Protein 2 1 1 1 1
   At1g56530 Hydroxyproline-Rich Glycoprotein 1 0 0 0 0
   At1g06020 Pfkb-Type Carbohydrate Kinase 2 1 0 1 1
   At2g43860 Polygalacturonase 2 0 0 0 1
   At1g78400 Glycoside Hydrolase Family 28 Protein 1 0 0 0 1
   At5g22960 Serine Carboxypeptidase A10 Family Protein 1 0 0 1 1
   At4g21630 Subtilase Family Protein 2 1 1 1 1
   At4g26280 Sulfotransferase Family Protein 2 0 0 0 0
Cell Structure And Transport
   At1g10010 Amino Acid Permease Involved In Transport 2 1 1 0 0
   At4g20800 FAD-Binding Domain-Containing Protein 2 0 0 1 0
   At1g34575 FAD-Binding Domain-Containing Protein 1 1 0 1 0
   At1g48010 Invertase/Pectin Methylesterase Inhibitor Family Protein 2 0 0 0 0
   At3g17150 Invertase/Pectin Methylesterase Inhibitor Family Protein 2 1 0 0 0
   At3g55680 Invertase/Pectin Methylesterase Inhibitor Family Protein 1 0 0 0 0
   At2g47280 Pectinesterase Family Protein 2 0 0 0 0
   At4g00190 Pectinesterase Family Protein 2 0 0 0 0
   At5g18990 Pectinesterase Family Protein 2 0 0 0 0
   At1g56620 Pectinesterase Inhibitor 2 0 0 0 0
   At2g23990 Plastocyanin-Like 2 1 0 0 1
   At1g73560 Lipid Transfer Protein (LTP) Family Protein 2 1 0 0 0
   At5g56480 Lipid Transfer Protein (LTP) Family Protein 2 0 0 0 1
   At1g63950 Lipid Transfer Protein (LTP) Family Protein 2 1 0 0 0
   At3g05460 Sporozoite Surface Protein-Related 2 1 0 0 0
   At5g06170 Sucrose Transporter 2 1 0 0 1
Uncategorized
   At1g24000 Bet V I Allergen Family Protein 2 1 0 0 0
   At3g42130 Glycine-Rich Protein 1 0 0 0 0
   At3g17140 Invertase Inhibitor-Related 2 0 0 0 0
   At5g09360 Laccase-Like Protein Laccase 2 0 1 1 1
   At1g79960 Ovate Protein-Related 2 0 0 0 0
   At3g59260 Pirin 2 0 0 0 0
   At4g30070 Plant Defensin-Fusion Protein 2 1 0 0 0
   At5g38330 Plant Defensin-Fusion Protein 2 0 0 0 0
   At2g01240 Reticulon Family Protein (RTNLB15) 2 0 1 0 0
   At3g17080 Self-Incompatibility Protein-Related 2 0 0 0 0
   At5g12060 Self-Incompatibility Protein-Related 2 1 0 0 0
   At3g28020 Unknown 1 0 0 0 0
   At3g19780 Unknown 1 0 0 0 0
   At5g30520 Unknown 1 0 0 0 0
   At3g45380 Unknown 1 0 0 0 0
   At4g23780 Unknown 1 0 0 0 0
   At1g54926 Unknown 1 0 0 0 0
   At3g23720 Unknown 1 0 0 0 0
   At1g47470 Unknown 1, 2 0 0 0 0
   At1g32680 Unknown 1 0 0 0 0
   At1g11690 Unknown 1 0 0 0 0
   At2g04870 Unknown 1 0 0 0 0
   At2g06630 Unknown 1 0 0 0 0
   At4g09400 Unknown 1 0 0 0 0
   At1g21950 Unknown 2 1 0 0 0
   At4g11510 Unknown 2 1 0 0 0
   At5g25960 Unknown 2 0 0 0 1
   At1g60985 Unknown 2 0 0 0 0
   At1g63960 Unknown 2 0 0 0 0
   At1g78710 Unknown 2 1 1 0 1
   At2g02515 Unknown 2 1 0 0 0
   At2g20070 Unknown 2 0 0 0 0
   At2g21740 Unknown 2 0 0 1 0
   At2g30900 Unknown 2 0 1 0 1
   At3g04540 Unknown 2 0 0 0 0
   At3g13630 Unknown 2 1 0 0 0
   At3g43500 Unknown 2 0 0 0 0
   At3g57850 Unknown 2 0 0 0 0
   At4g07515 Unknown 2 0 0 0 0
   At4g10220 Unknown 2 1 0 0 0
   At4g17505 Unknown 2 0 0 0 1
   At5g17130 Unknown 2 0 0 0 0
   At5g25950 Unknown 2 1 0 0 1
   At5g46300 Unknown 2 1 0 0 0
   At5g64720 Unknown 2 0 0 1 0
   At1g52970 Unknown 2 0 0 0 0
   At5g42955 Unknown 2 0 0 0 0
   At2g21655 Unknown 2 0 0 0 0
   At2g20595 Unknown 2 0 0 0 0
   At1g45190 Unknown 2 0 0 0 0
   At5g43510 Unknown 2 1 0 0 0
   At2g15780 Unknown, Blue Copper-Binding Protein 1 0 0 0 0
   At1g24851 Unknown 1 0 0 0 0
   At1g30030 Non-LTR retrotransposon family (LINE) 1 0 ND ND ND
   At2g34130 CACTA-like transposase family 2 0 ND ND ND
   At3g42930 CACTA-like transposase family 1 0 ND ND ND
  1. Embryo sac-enriched expression for the 1,260 candidate genes was deduced by comparing the transcriptomes of cotyledon, hypocotyls, root, leaf, shoot, petiole, sepal, petal, pedicel, mature siliques, mature seeds, rosettes, and pollen (see Additional data file 6 for details). Note that there were ten more microarray probes that identified expressed genes (At1g75610, At4g04300, At2g13750, At3g32917, At4g05600, At4g07780, At2g23500, At1g78350, At5g34990, and At2g10840), but they were omitted as pseudogenes by the The Arabidopsis Information Resource (TAIR) Gene ontology. See Additional data files 2 and 3 for further details. a'1' indicates coatlique dataset and '2' indicates sporocyteless dataset. b'0' indicates absent and '1' indicates present in Arabidopsis thaliana (At) transcriptomes of immature siliques with globular embryo. Data are derived from Schmid and coworkers [28]. cAppropriate scores were assigned if an Arabidopsis gene is similar (= 1) or not (= 0) to Zea mays (Zm) and wheat expressed sequence tags (ESTs) by basic local alignment search tool (BLAST) analysis at an e-value of 10-8. A total of 10,747 embryo sac (ES) ESTs, 5,925 egg cell ESTs, and 15,677 ESTs from central cell (CC) and immature endosperm (EN) cells (1-6 days after pollination [DAP]) were used in the BLAST analysis. See Additional data file 8 for further details on the ESTs. ND, not determined.