Table 1.
Transcriptome profiling of CaRZFP1 overexpressing lettuce and tobacco plants by microarray analysis
| Gene symbol | Gene description | CaRZFP1 -transgenic lettuce lines/vector controls (log 2 fold change) | |||
|---|---|---|---|---|---|
| No. 6 | No. 14 | No. 16 | No. 12 | ||
| a. Genes up-regulated in CaRZFP1-overexpressing T4 generation lettuce plants | |||||
| At5g53170 | Cell division protease ftsH-11 (FTSH11) | 0.28 | 0.38 | 1.36 | 2.36 |
| At5g52910 | Timeless family protein (ATIM) | 0 | 0.52 | 0.42 | 3.35 |
| At1g08260 | DNA polymerase epsilon subunit 1 (TIL1) | 0 | 0 | 0 | 3.35 |
| At1g80490 | Topless-related protein 1 (TPR1) | 0.50 | 0.75 | 0.37 | 3.31 |
| At1g55110 | Indeterminate-domain 7 protein (IDD7) | 0.03 | 1.33 | 0.76 | 3.09 |
| At4g31920 | Arabidopsis response regulator 10 (ARR10) | 0.00 | 0.30 | 0.11 | 3.31 |
| At5g08130 | BES1-interacting MYC-like 1 (BIM1) | 0 | 0.20 | 0.18 | 3.08 |
| At1g80580 | Ethylene-responsive factor (ERF) | 0 | 0 | 0 | 4.32 |
| At1g08465 | Putative axial regulator YABBY 2 (YAB2) | 0 | 0 | 0 | 5.97 |
| At1g20910 | ARID/BRIGHT DNA-binding domain-containing protein | 0 | 0 | 0 | 4.38 |
| At3g44370 | Membrane insertion protein, OxaA/YidC with tetratricopeptide repeat domain-containing protein | 0.21 | 1.23 | 1.01 | 2.68 |
| At1g21310 | Extensin 3 (EXT3) | 0.73 | 1.44 | 1.02 | 3.50 |
| At4g33610 | Glycine-rich protein | 0 | 0 | 0 | 3.08 |
| At3g28550 | Proline-rich extensin-like family protein | 0 | 0 | 0 | 3.04 |
| At3g24860 | Hydroxyproline-rich glycoprotein family protein | 0 | 0 | 0 | 2.95 |
| At4g30170 | Peroxidase 45 | 0.12 | 1.34 | 0.83 | 2.65 |
| At5g48300 | Glucose-1-phosphate adenylyltransferase small subunit (ADG1) | 0.02 | 0.26 | 0.41 | 2.79 |
| At5g08530 | NADH dehydrogenase (ubiquinone) flavoprotein 1(CI51) | 0.02 | 1.22 | 1.53 | 3.02 |
| At3g03890 | FMN binding protein | 1.39 | 1.59 | 2.08 | 3.12 |
| At4g10120 | Sucrose-phosphate synthase | 0 | 0 | 0 | 2.44 |
| At5g66230 | Chalcone-flavanone isomerase family protein | 0 | 0 | 0 | 4.34 |
| At1g17420 | Lipoxygenase 3 (LOX3) | 0 | 0 | 0 | 4.60 |
| At5g08100 | Isoaspartyl peptidase/l-asparaginase 1 subunit beta | 0 | 0 | 0 | 4.63 |
| At5g41080 | Glycerophosphoryl diester phosphodiesterase family protein | 0 | 0 | 0 | 4.10 |
| At1g54620 | Pectin methylesterase inhibitor superfamily protein | 0 | 0 | 0 | 4.30 |
| At1g06700 | Protein kinase domain-containing protein | 0.50 | 0.48 | 0.06 | 4.08 |
| At3g48190 | Serine/threonine-protein kinase (ATM) | 0.00 | 1.50 | 0.86 | 2.74 |
| At4g04960 | L-type lectin receptor kinase VII.1 (LECRK-VII.1) | 0 | 0 | 0 | 4.31 |
| At3g20860 | NIMA-related kinase 5 (NEK5) | 0 | 0 | 0 | 2.44 |
| At3g24540 | Proline-rich extensin-like receptor kinase (PERK) | 0 | 0 | 0 | 3.46 |
| At5g11360 | Interleukin-1 receptor-associated kinase 4 protein | 0 | 0 | 0 | 3.33 |
| At5g12235 | CLAVATA3/ESR-related 22 protein (CLE22) | 0 | 0 | 0 | 3.99 |
| At3g55840 | Hs1pro-1 protein | 0.54 | 1.16 | 0.87 | 4.62 |
| At3g61185 | Defensin-like (DEFL) family protein | 0 | 0 | 0 | 5.43 |
| At4g10850 | Nodulin MtN3-like protein | 0.32 | 0.40 | 0.39 | 3.39 |
| At3g07100 | Sec24-like transport protein (ERMO2) | 0.69 | 1.27 | 2.14 | 3.49 |
| At5g27100 | Glutamate receptor 2.1 (GLR2.1) | 0.06 | 0.24 | 1.97 | 2.52 |
| At5g01990 | Auxin efflux carrier family protein | 0.87 | 1.44 | 1.48 | 2.32 |
| At3g26520 | Tonoplast intrinsic protein 2 (TIP2) | 0 | 0 | 0 | 2.86 |
| At2g39890 | Proline transporter 1 (PROT1) | 0 | 0 | 0 | 3.27 |
| At5g51710 | K(+) efflux antiporter 5 (KEA5) | 0 | 0 | 0 | 2.47 |
| At1g79520 | Cation efflux family protein | 0 | 0 | 0 | 2.47 |
| At3g55740 | Proline transporter 2 (PROT2) | 0 | 0 | 0 | 2.55 |
| At1g80300 | Nucleotide transporter 1 (NTT1) | 0 | 0 | 0 | 3.64 |
| At1g23910 | Polyketide cyclase/dehydrase and lipid transport superfamily protein | 0 | 0 | 0 | 4.77 |
| At4g19680 | Fe(2+) transport protein 2 (IRT2) | 0 | 0 | 0 | 4.06 |
| At5g59030 | Copper transporter 1 (COPT1) | 0 | 0 | 0 | 4.65 |
| At4g08290 | Nodulin MtN21/EamA-like transporter family protein | 0 | 0 | 0 | 4.88 |
| At1g31920 | Pentatricopeptide repeat-containing protein | 0.14 | 1.39 | 1.29 | 3.76 |
| At2g17600 | Cysteine/histidine-rich C1 domain-containing protein | 0.46 | 0.62 | 0.48 | 2.77 |
| At5g45428 | Conserved peptide upstream open reading frame 24 (CPuORF24) | 0.53 | 0.54 | 0.63 | 3.23 |
| At5g42990 | Putative ubiquitin-conjugating enzyme E2 18 (UBC18) | 0.27 | 0.77 | 1.01 | 2.17 |
| At1g71410 | Armadillo/beta-catenin-like repeats-containing protein | 0.75 | 1.88 | 2.04 | 3.09 |
| At4g01640 | F-box associated ubiquitination effector family protein | 0.04 | 0.66 | 0.80 | 6.21 |
| At2g35140 | Development and cell death domain protein (DCD) | 0 | 0.31 | 0.88 | 3.53 |
| At1g31090 | F-box domain-containing protein | 0 | 0 | 1.26 | 2.97 |
| At4g03510 | E3 ubiquitin-protein ligase (RMA1) | 0 | 0 | 2.05 | 3.47 |
| At3g62940 | Cysteine proteinases family protein | 0 | 0 | 0.17 | 4.72 |
| At3g26805 | Aspartic protease family protein | 0 | 0 | 0 | 4.47 |
| At4g30020 | PA-domain-containing subtilase family protein | 0 | 0 | 0 | 4.99 |
| At1g06630 | F-box domain-containing protein | 0 | 0 | 0 | 3.43 |
| At3g23880 | F-box/kelch-repeat protein | 0 | 0 | 0 | 3.69 |
| At3g11000 | Development and cell death domain protein (DCD) | 0 | 0 | 0 | 5.13 |
| At2g18970 | Uncharacterized gene | 0.83 | 1.92 | 0.95 | 3.40 |
| At5g04550 | Uncharacterized gene | 0.11 | 1.43 | 1.67 | 3.29 |
| At1g55160 | Uncharacterized gene | 0.63 | 1.13 | 1.86 | 3.54 |
| At2g11630 | Uncharacterized gene | 0.02 | 0.23 | 0.59 | 6.04 |
| At2g24755 | Uncharacterized gene | 0 | 0.32 | 0.51 | 4.97 |
| At5g26775 | Uncharacterized gene | 0 | 1.02 | 1.71 | 6.71 |
| At3g11300 | Uncharacterized gene | 0 | 0 | 1.09 | 4.25 |
| At1g43195 | Uncharacterized gene | 0 | 0 | 0 | 4.21 |
| At2g22122 | Uncharacterized gene | 0 | 0 | 0 | 4.47 |
| At1g63610 | Uncharacterized gene | 0 | 0 | 0 | 4.38 |
| b. Genes down-regulated in CaRZFP1-overexpressing T4 generation lettuce plants | |||||
| At2g47850 | Zinc finger CCCH domain-containing protein 32 | − 0.90 | − 0.54 | − 0.43 | − 3.62 |
| At4g10300 | RmlC-like cupins super family protein | − 0.85 | − 0.92 | − 1.69 | − 2.02 |
| At3g55850 | Amidohydrolase family protein (LAF3) | − 0.12 | − 0.19 | − 0.51 | − 2.63 |
| At4g15550 | Indole-3-acetate beta-D-glucosyltransferase (IAGLU) | − 0.05 | − 0.15 | − 0.11 | − 3.41 |
| At5g37600 | Glutamine synthetase cytosolic isozyme 1–1 (GSR 1) | − 1.68 | − 1.31 | − 1.85 | − 3.22 |
| At3g44200 | Serine/threonine-protein kinase Nek5 (NEK6) | − 1.44 | − 1.46 | − 1.92 | − 2.06 |
| At1g60800 | NSP-interacting kinase 3 (NIK3) | −− 1.30 | −− 1.32 | − 1.63 | − 2.96 |
| At2g47990 | Transducin family protein/WD-40 repeat family protein | − 0.59 | − 0.92 | − 1.65 | − 2.00 |
| At4g08950 | Phosphate-responsive 1 family protein (EXO) | − 1.29 | − 1.35 | − 1.09 | − 4.47 |
| At3g02490 | Pentatricopeptide repeat (PPR) superfamily protein | − 1.40 | − 0.75 | − 0.81 | − 3.11 |
| AtCG00290 | tRNA-Ser | − 0.17 | − 0.74 | − .074 | − 2.64 |
| At5g37650 | Uncharacterized gene | − 0.71 | − 1.07 | − 1.38 | − 3.17 |
| At3g52742 | Uncharacterized gene | − 0.41 | − 1.10 | − 0.12 | − 2.14 |
| At3g15518 | Uncharacterized gene | − 2.26 | − 2.12 | − 1.73 | − 3.95 |
| Gene symbols | Gene description | CaRZFP1 -transgenic tobacco/vector controls (log 2 fold change) | |||
| c. Up-regulated genes in CaRZFP1-overexpressing T2 generation tobacco plants (Zeba et al. 2009) | |||||
| At5g55280 | Cell division protein ftsZ | 2.21 | |||
| At3g12400 | Tumor susceptibility gene 101 (tsg101) family protein | 3.21 | |||
| At1g70490 | ADP-ribosylation factor | 6.88 | |||
| At1g13740 | ABI five binding protein 2 | 5.80 | |||
| At5g39650 | DUO1-activated unknown 2 (DUO2) | 2.03 | |||
| At5g10430 | Arabinogalactan-protein (agp4) | 4.42 | |||
| At5g64310 | Arabinogalactan-protein (agp1) | 2.52 | |||
| At4g37450 | Arabinogalactan-protein (agp18) | 3.50 | |||
| At2g46330 | Arabinogalactan-protein (agp16) | 2.87 | |||
| At5g49080 | Proline-rich extensin-like family protein | 2.18 | |||
| At3g49300 | Proline-rich family protein | 1.78 | |||
| At3g49305 | Hypothetical protein contains proline-rich extensin domains | 2.17 | |||
| At4g38770 | Proline-rich family protein (prp4) | 6.05 | |||
| At4g08380 | Proline-rich extensin-like family protein | 2.48 | |||
| At5g19800 | Hydroxyproline-rich glycoprotein family protein | 2.72 | |||
| At2g05380 | Glycine-rich protein (grp3) | 3.71 | |||
| At1g11580 | Pectin methylesterase | 2.32 | |||
| At5g38410 | Ribulose bisphosphate carboxylase small chain 3b | 3.49 | |||
| At3g23820 | NAD-dependent epimerase | 2.21 | |||
| At3g25140 | Glycosyl transferase family 8 protein | 2.86 | |||
| At4g15233 | ABC transporter family protein | 7.31 | |||
| At1g11860 | Aminomethyltransferase | 2.72 | |||
| At5g58050 | Glycerophosphoryl diester phosphodiesterase family protein | 2.43 | |||
| At4g13090 | Xyloglucan:xyloglucosyl transferase/xyloglucan endotransglycosylase | 2.27 | |||
| At3g63200 | Patatin-like protein 9 | 4.88 | |||
| At1g80380 | Phosphoribulokinase/uridine kinase-related | 2.51 | |||
| At4g36360 | Beta-galactosidase | 4.55 | |||
| At2g46820 | Curvature thylakoid 1B (CURT1B) | 3.07 | |||
| At1g74670 | Gibberellin-responsive protein | 4.46 | |||
| At2g45770 | Signal recognition particle receptor protein/chloroplast (ftsY) similar to cell division protein | 3.06 | |||
| At1g55480 | Plant protein family containing a PDZ, a K-box, and a TPR motif (ZKT) | 2.61 | |||
| At5g48760 | 60s ribosomal protein L13A (RPL13aD) | 1.89 | |||
| At3g59760 | Cysteine synthase c/O-acetylserine (thiol)-lyase isoform c | 2.22 | |||
| At2g17360 | 40s ribosomal protein s4 (rps4a) | 2.32 | |||
| At1g02780 | 60s ribosomal protein | 3.31 | |||
| At5g13650 | Elongation factor family protein | 2.38 | |||
| At4g33510 | 3-Deoxy-D-arabino-heptulosonate-7-phosphate 2 (dahp2) | 2.58 | |||
| At5g64680 | Uncharacterized gene | 2.23 | |||
| At5g36070 | Uncharacterized gene | 5.56 | |||
| At3g43684 | Uncharacterized gene | 2.58 | |||
| At2g36885 | Uncharacterized gene | 4.09 | |||
| At2g05752 | Uncharacterized gene | 4.38 | |||
| At5g02240 | Uncharacterized gene | 3.00 | |||
| At1g67700 | Uncharacterized gene | 1.99 | |||
| At4g18070 | Uncharacterized gene | 2.28 | |||
| d. Down-regulated genes in CaRZFP1-overexpressing T2 generation tobacco plants (Zeba et al. 2009) | |||||
| At1g61780 | Postsynaptic protein-related | − 1.94 | |||
| At5g60870 | Regulator of chromosome condensation (rcc1) family protein | − 2.43 | |||
| At3g12090 | Tetraspanin gene family (TET6) | − 2.43 | |||
| At5g66070 | Zinc finger (C3HC4-type ring finger) family protein | − 2.03 | |||
| At1g54060 | Trihelix DNA-binding protein family | − 1.80 | |||
| At4g02720 | NF-kB activating protein (NKAP) proteins | − 2.22 | |||
| At5g02820 | Brassinosteroid insensitive 5 (BIN5) | − 2.55 | |||
| At3g13520 | Arabinogalactan-protein (agp12) | − 2.36 | |||
| At2g05540 | Glycine-rich protein | − 1.69 | |||
| At1g29050 | Trichome birefringence-like 38 | − 2.25 | |||
| At2g18700 | Trehalose phosphatase/synthase 11 (TPS11) | − 2.40 | |||
| At2g18600 | Rub1-conjugating enzyme | − 2.23 | |||
| At3g47950 | ATPase | − 2.03 | |||
| At3g19700 | Leucine-rich repeat transmembrane protein kinase | − 2.17 | |||
| At5g63870 | Serine/threonine-protein phosphatase (pp7) | − 2.16 | |||
| At5g56460 | Protein kinase | − 2.86 | |||
| At5g60460 | Sec61-beta subunit family protein | − 2.78 | |||
| At2g37470 | Histone h2b | − 3.19 | |||
| At4g27960 | Ubiquitin-conjugating enzyme 9 (ubc9) | − 2.35 | |||
| At3g01400 | Armadillo/beta-catenin repeat family protein | − 2.89 | |||
| At5g66040 | Protein with thiosulfate sulfurtransferase/rhodanese activity (STR16) | − 1.91 | |||
| At3g09440 | Heat shock protein 70 (hsp70) | − 1.83 | |||
| At2g46550 | Uncharacterized gene | − 2.66 | |||
| At1g63930 | Uncharacterized gene | − 2.72 | |||
Group 1 genes are in bold