Table 4.
Genes Whose Transcripts Accumulated to at Least Twofold Higher Levels in Vascular Tissues than in Epidermal Cells or Total Coleoptilesabc
| EST Clone No. (Contig No.)a |
Accession No. |
Relative Expression Levels (Ratio of Signal Intensities)b |
Putative Gene Identification [Species] (Accession No.) | e Value |
|---|---|---|---|---|
| Transporter and aquaporins | ||||
| 496021E01 | AI967075 | V > E (3.69) | Sulfate transporter protein [Sporobolus stapfianus] (X96761) | 6e-60 (N)c |
| 603023D01 | AI947544 | V > E (2.84) | Plasma membrane integral protein ZmPIP1-4 [Zea mays] (AF326488) | 0 (N) |
| 603028B08 | AI947770 | V > E (3.31) | Plasma membrane integral protein ZmPIP2-6 [Zea mays] (AF326495) | 0 (N) |
| 606028H07 | AI691297 | V > C (6.48) | Putative membrane transporter [Arabidopsis thaliana] (AAM20397) | 1e-58 (X) |
| 606039D11 | AI737357 | V > E (3.85) V > C (5.25) |
NOD26-like membrane integral protein ZmNIP3-1 [Zea mays] (AF326486) | 0 (N) |
| Metal binding and metal homeostasis | ||||
| 496008B02 | AI649699 | V > E (6.15) | Metallothionein-like protein [Zea mays] (S57628) | 6e-70 (N) |
| 496030C04 | AI974911 | V > E (3.47) V > C (8.63) |
Nicotianamine synthase3 (ZmNAS3) [Zea mays] (AB042551) | 1e-12 (N) |
| 606021A06 | AI714806 | V > E (6.89) | Metallothionein-like protein type 2 (OsMT-2) [Oryza sativa] (U43530) Anther-specific protein [Zea mays] (AJ006700) |
4e-24 (N) 7e-35 (N) |
| 618002E08 | AI901370 | V > E (2.46) | Copper homeostasis factor CCH [Arabidopsis thaliana] (NP_191183) | 4e-16 (X) |
| Lignin biosynthesis | ||||
| 614011B10 | AI783384 | V > E (3.55) V > C (3.35) |
Cinnamyl alcohol dehydrogenase [Zea mays] (AJ005702) | 0 (N) |
| Proteolysis | ||||
| 606029E11 (1) | AI734319 | V > E (11.03) V > C (9.34) |
Cys protease XCP1 [Arabidopsis thaliana] (NP_567983) | 4e-49 (X) |
| 606032C10 | AI734503 | V > E (2.37) | Ubiquitin-specific protease12 (UBP12) [Arabidopsis thaliana] (NP_568171) | 2e-18 (X) |
| 606054C10 | AI770559 | V > E (2.06) | Cys protease oryzain β [Oryza sativa] (D90407) Partial mRNA for putative Cys protease (pCYSPROT gene) [Hordeum vulgare] (AJ278817) |
6e-32 (N) 1e-33 (N) |
| 606061G09 | AI770385 | V > E (2.12) | Ubiquitin-conjugating enzyme (UBC) [Zea mays] (AF034946) | 3e-56 (N) |
| 606067D11 | AI834390 | V > E (2.61) | Putative E2, ubiquitin-conjugating enzyme [Arabidopsis thaliana] (AAL66989) | 4e-10 (X) |
| MEST19-E10 (1) | BG841265 | V > E (2.88) V>C (4.57) |
Cys protease XCP1 [Arabidopsis thaliana] (NP_567983) | 4e-53 (X) |
| Others | ||||
| 486019D06 | AI621758 | V > E (5.06) | RNA binding protein–like [Arabidopsis thaliana] (NM_124996) | 2e-22 (X) |
| 486020D11 | AI491665 | V > C (2.70) | Glutathione S-transferase GST 12 [Zea mays] (AF244677) | 0 (N) |
| 486027D11 | AI621860 | V > E (5.50) | Putative chloroplast 50S ribosomal protein L6 [Arabidopsis thaliana] (NM_100397) | 3e-46 (X) |
| 486027G08 | AI621892 | V > E (2.12) | Pyruvate kinase, cytosolic isozyme [Nicotiana tabacum] (Q42954) | 2e-18 (X) |
| 486030A02 | AI621965 | V > E (2.60) | Putative translation initiation factor IF-2 [Arabidopsis thaliana] (NM_117186) | 5e-39 (X) |
| 486040A05 | AI622299 | V > C (2.46) | Receptor protein kinase–like protein [Arabidopsis thaliana] (T50006) | 4e-17 (X) |
| 486068B10 | AI649601 | V > E (6.01) | Putative protein kinase SPK-3 [Oryza sativa] (BAB64101) | 2e-93 (X) |
| 486068D09 | AI600772 | V > E (4.51) | Lipid transfer protein precursor [Oryza sativa] (U29176) | 2e-10 (N) |
| 486068H10 | AI649633 | V > E (5.38) | Putative zinc finger protein [Oryza sativa (japonica cultivar group)] (AP002525) | 2e-07 (X) |
| 486093A08 | AI657290 | V > E (4.30) | Clone R2R3MYB-domain protein [Zea mays] (AF099392) | 2e-65 (N) |
| 486093D03 | AI657322 | V > E (5.93) | Mitochondrial carrier protein–like [Arabidopsis thaliana] (NM_125896) | 2e-06 (X) |
| 496008D11 | AI649714 | V > C (6.32) | γ-Tocopherol methyltransferase [Perilla frutescens] (AF213481) | 5e-46 (X) |
| 496008H11 | AI649739 | V > E (2.94) | ABC transporter–like [Arabidopsis thaliana] (NM_125893) | 2e-37 (X) |
| 603009H06 (2) | AI855201 | V > C (3.27) | Ubiquinol–cytochrome c reductase complex 14-kD protein (CR14) [Solanum tuberosum] (P48502) |
3e-39 (X) |
| 603015D08 | AI855368 | V > E (6.56) V > C (5.76) |
Phosphoenolpyruvate carboxykinase [Zea mays] (AB018744) | 1e-152 (N) |
| 603016C07 | AI855411 | V > E (2.08) | Gs1-5, glutamine synthatase [Zea mays] (X65930) | 0 (N) |
| 603026D08 | AI947671 | V > C (3.29) | Putative Caulobacter crescentusd-isomer–specific 2-hydroxyacid dehydrogenases family protein [Oryza sativa (japonica cultivar group)] (AP003434) |
7e-44 (X) |
| 603029D08 | AI947839 | V > C (3.05) | Water stress–inducible protein (WSI) [Oryza sativa] (AF010584) | 8e-12 (N) |
| 603034C08 | AI948085 | V > C (3.50) | 3-Ketoacyl-CoA thiolase; acetyl-CoA acyltransferase [Cucumis sativus] (X67696) | 2e-10 (X) |
| 496034E08 | AI977867 | V > E (11.53) V >C (5.12) |
50S ribosomal protein L10 (rpl10) [Oryza sativa] (AF095709) | 1e-144 (N) |
| 605018D08 | AI668223 | V > C (3.79) | Proteinase inhibitor precursor [Capsicum annuum] (AF442388) | 9e-09 (X) |
| 606003B05 | AI665879 | V > C (5.02) | Cytochrome c oxidase subunit2 (cox2) gene, mitochondrial gene encoding mitochondrial protein, partial primary transcript [Zea perennis] (U16993) |
0 (N) |
| 606021C04 | AI714822 | V > C (2.25) | HSP18–18-kD heat shock protein (microsporogenesis-specific) [Zea mays, Oh43, clone cMHSP18-1, mRNA, 790 nucleotides] (S59777) |
e-164 (N) |
| 606021G04 | AI714865 | V > E (3.26) | Aluminum-induced protein–like [Arabidopsis thaliana] (NM_123750) | 2e-40 (X) |
| 606028F12 | AI691285 | V > E (8.19) V > C (9.59) |
Putative gag-pol precursor [Zea mays] (AF464738) | 0 (N) |
| 606029B01 | AI734289 | V > E (6.26) V > C (9.82) |
Cystathionine γ-synthase (CGS1) [Zea mays] (AF007785) | 0 (N) |
| 606029D11 | AI734310 | V > E (9.24) V > C (8.30) |
Putative DNA binding protein [Arabidopsis thaliana] (NP_181718) | 2e-09 (X) |
| 606037F05 | AI737228 | V > C (2.07) | Putative 6-phosphogluconolactonase (6PGL) [Brassica carinata] (AY030298) | 9e-10 (N) |
| 606046A10 | AI738135 | V > C (2.66) | Gpa1 gene for glyceraldehyde-3-phosphate dehydrogenase subunit A [Zea mays] (X15408) | 6e-32 (N) |
| 606059D06 | AI770858 | V > C (4.48) | Novel protein, osr40c1 [Oryza sativa] (X95402) | 0 (N) |
| 606066D09 | AI834006 | V > E (5.50) | Putative thiolase [Oryza sativa (japonica cultivar group)] (AC034258) | 7e-62 (X) |
| 614001E04 | AI795691 | V > E (3.52) | ZmRR6, response regulator 6 [Zea mays] (AB042268) | 0 (N) |
| 614006G05 | AI782943 | V > E (2.56) | Cactin gene product [Drosophila melanogaster] (AE003571) | 1e-11 (X) |
| 614010C09 (3) | AI783310 | V > E (2.24) | Putative ubiquinol–cytochrome c reductase complex ubiquinone binding protein (QP-C) [Arabidopsis thaliana] (NM_111923) | 2e-28 (X) |
| 614034F08 | AI944069 | V > E (2.15) | Glyceraldehyde-3-phosphate dehydrogenase [Zea mays] (L13431) | 5e-61 (N) |
| 614038A07 | AW065225 | V > C (2.88) | Plasma membrane H+ ATPase–like gene [Zea mays] (AF480431) | 3e-49 (N) |
| 614043B02 | AI977968 | V > E (3.24) V > C (3.75) |
von Hippel–Lindau binding protein–like protein [Arabidopsis thaliana] (NP_199762) | 1e-55 (X) |
| 614074A04 | AW052810 | V > E (2.52) V > C (5.36) |
Putative abscisic acid–responsive protein [Oryza sativa] (AAL31061) | 3e-77 (X) |
| 614077D10 | AW052986 | V > C (3.98) | Putative nucleoside triphosphatase [Arabidopsis thaliana] (NM_126349) | 3e-10 (X) |
| 614084A02 | AW056312 | V > C (3.18) | SEC5a [Arabidopsis thaliana] (AAL87121) | 6e-61 (X) |
| 687043E11 | AW216233 | V > E (2.94) | Alcohol dehydrogenase1 (adh1) gene, adh1-F allele [Zea mays] (AF123535) | 1e-14 (N) |
| 687064H07 | AW257962 | V > E (2.21) | Nuclear pore protein–like [Arabidopsis thaliana] (NM_123412) | 8e-08 (X) |
| 687064H10 (2) | AW257964 | V > C (2.55) | Ubiquinol–cytochrome c reductase complex 14-kD protein (CR14) [Solanum tuberosum] (P48502) |
2e-39 (X) |
| 687067C04 | AW231567 | V > C (2.39) | Putative RNA-directed RNA polymerase [Arabidopsis thaliana] (NM_117183) | 2e-25 (X) |
| 707018A04 (3) | AW424554 | V > E (2.05) | Putative ubiquinol–cytochrome c reductase complex ubiquinone binding protein (QP-C) [Arabidopsis thaliana] (NM_111923) |
3e-28 (X) |
| 707018F01 | AW424582 | V > C (3.78) | 18S ribosomal RNA gene [Zea mays] (U42796) | 2e-81 (N) |
| 707035F11 | AW330705 | V > C (2.42) | DP-like protein (dpb gene) [Arabidopsis thaliana] (AJ294532) | 9e-19 (N) |
| 707047A12 | AW331087 | V > C (5.40) | Chloride channel ABP [Homo sapiens] (AF034607) | 9e-07 (N) |
| 707058E10 | AW424682 | V > C (2.36) | Polygalacturonase (clone PG2) [Zea mays] (X57628) | 0 (N) |
| 707061D01 | AW400064 | V > C (4.03) | Heat shock protein 101 kD (HSP101) [Nicotiana tabacum] (AF083343) | 5e-11 (N) |
| 707074G06 | AW438153 | V > C (2.57) | Putative AP2 domain transcriptional regulator [Oryza sativa (japonica cultivar group)] (AC107314) |
4e-08 (X) |
| 945033E03 | BE129947 | V > C (2.79) | Translation initiation factor [Pisum sativum] (Y17186) | 8e-16 (N) |
| 945034A12 | BE129972 | V > C (3.74) | Glutamine synthetase [Zea mays] (D14577) | 0 (N) |
| MEST13-H01 | BG840953 | V > E (3.06) V > C (3.09) |
Acyl-CoA binding protein (ACBP) [Oryza sativa] (AY121834) | 7e-57 (N) |
| MEST28-E06 | BG842238 | V > E (3.03) V > C (5.53) |
Carbonic anhydrase (CAH1) [Arabidopsis thaliana] (NP_566971) | 5e-10 (X) |
(Continued)
Significant differences (P < 0.05) were determined by one-tailed Student's t test. E, epidermal cells; V, vascular tissues; C, coleoptiles.
a
ESTs with the same contig number cluster with CAP3 (Huang and Madan, 1999).
b
Ratio of mean signal intensity of channel 1 in eight spots to mean signal intensity of channel 2 in eight spots (duplicate spots in four hybridizations).
c
N, BLASTN (Basic Local Alignment Search Tool N); X, BLASTX.