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. 2008 Aug 19;8:89. doi: 10.1186/1471-2229-8-89

Table 2.

Selected genes differentially regulated by ≥ 2.0-fold or ≤ 0.5-fold in at least one M. truncatula line in response to Al treatment.

TIGR TC Tentative Annotation GO process iD Fold Change T32 Fold Change S70
Cell Wall Modification 12 h 48 h 12 h 48 h
TC96658 Xyloglucan endotransglucosylase putative Carbohydrate metabolism GO:0005975 2.2 2.9 5.3 10.7
TC100486 Xyloglucan endotransglycosylase putative Carbohydrate metabolism 2.3 0.9 1.3 0.8
TC95073 Polygalacturonase like protein Carbohydrate metabolism 2.6 0.6 4.3 1.3
TC96355 Polygalacturonase Carbohydrate metabolism 1.1 2.3 ND 4.1
TC111920 Polygalacturonase PG1 putative Carbohydrate metabolism 1.4 2.8 1.5 3.7
TC110038 Pectinesterase putative Cell wall modification GO:0042545 2.0 1.1 1.3 0.7
TC94920 Probable pectinesterase precursor Cell wall modification 2.2 0.8 4.5 ND
TC107655 Xyloglucanase inhibitor putative Unknown 1.3 1.3 4.4 ND
TC94309 Xyloglucanase inhibitor putative Unknown 1.1 0.9 2.0 0.9
TC94310 Xyloglucanase inhibitor putative Unknown 1.1 0.8 2.1 0.9
TC98964 Caffeic acid O-methyltransferase Lignin biosynthesis GO:0009809 1.3 0.9 1.5 2.0
TC107848 Caffeic acid O-methyltransferase II Lignin biosynthesis 1.2 1.2 2.1 1.3
TC100394 Caffeic acid O-methyltransferase Lignin biosynthesis 1.1 ND 2.1 2.8
TC94484 Expansin Cell expansion GO:0009831 1.5 1.5 2.0 3.7
TC109283 Expansin Cell expansion 1.4 1.5 1.4 3.0
TC100685 Pectate lyase Unknown 1.4 1.8 1.2 4.7
TC96079 Pectate lyase Unknown 1.4 1.8 1.9 4.6
TC108882 β-1,4-glucanase Carbohydrate metabolism 1.3 1.5 ND 10.6
TC108539 Arabinogalactan protein-like Cell adhesion GO:0007155 0.6 1.1 1.0ns 3.8
TC94068 Fasciclin-like AGP 14 Cell adhesion ND 1.1 1.0 2.3
TC108519 Fasciclin-like AGP 14 Cell adhesion 0.6 1.5 ND 6.9
TC104866 Pectinesterase like protein Cell wall modification 0.5 1.3 0.3 0.5
Oxidative Stress-ROS Generation
TC95154 Peroxidase Response to oxidative stress GO:0006979 6.3 3.9 16.4 3.0
TC103581 Peroxidase Response to oxidative stress 5.2 2.5 9.9 2.6
TC108789 Peroxidase 11 precursor Response to oxidative stress 4.2 3.5 7.6 2.4
TC97623 Peroxidase Response to oxidative stress 2.6 3.1 ND 0.7
TC107670 Peroxidase Response to oxidative stress 3.0 1.6 4.3 1.3
TC108447 Peroxidase 2 Response to oxidative stress 2.9 0.4 2.3 0.8
TC95164 Peroxidase 55 precursor Response to oxidative stress 2.0 0.9 3.2 1.9
TC111928 Peroxidase precursor Response to oxidative stress 1.6 2.9 2.4 2.8
TC103214 Peroxidase Response to oxidative stress 1.4 0.7 1.4 2.4
TC101009 Peroxidase Response to oxidative stress 1.6 0.9 ND 2.8
TC108315 Cationic peroxidase 2 precursor Response to oxidative stress 1.1 0.9 1.9 2.7
TC111871 Peroxidase Response to oxidative stress 1.4 1.4 2.4 2.3
TC94676 Peroxidase precursor Response to oxidative stress 1.2 1.2 2.2 2.5
TC108988 Germin-like protein precursor Response to oxidative stress 2.9 ND 1.6 0.5
TC100563 Germin-like protein Response to oxidative stress 1.6 ND 2.3 1.1
TC94265 Germin-like protein Response to oxidative stress 0.9ns 0.6 2.1 1.9ns
TC107416 Carbohydrate oxidase Electron transport GO:0006118 1.2 1.4 4.3 1.7
TC103024 Peroxidase Response to oxidative stress 0.4 0.3 0.4 0.1
TC100904 Peroxidase precursor Response to oxidative stress 0.2 0.2 0.1 0.2
TC102226 Peroxidase Response to oxidative stress 0.3 ND 0.1 0.2
TC104806 Probable peroxidase Response to oxidative stress 0.4 0.3 1.5 0.4
TC106851 Peroxidase 2 Response to oxidative stress 0.4 0.5 0.6 0.5
TC108234 Peroxidase precursor Response to oxidative stress 0.2 0.3 0.2 0.7
TC96817 Germin-like protein Response to oxidative stress 0.5ns 1.4 0.3 0.8
TC100175 Lipoxygenase Jasmonic acid biosynthesis GO:0009695 0.4 0.4 ND 1.1
TC100188 Lipoxygenase LoxN2 Jasmonic acid biosynthesis 0.7 0.5 0.5 0.9
TC100155 Lipoxygenase Jasmonic acid biosynthesis 0.6 0.3 0.5 0.7
TC100171 Lipoxygenase Jasmonic acid biosynthesis 0.6 0.3 0.5 0.8
Oxidative Stress- ROS Scavenging
TC94929 Quinone-oxidoreductase QR1 Threonine catabolism GO:0006567 2.0 1.2 1.8 0.9ns
TC110730 Quinone-oxidoreductase QR1 Threonine catabolism 2.2 1.3 1.3 0.8
TC107874 NADH-ubiquinone oxidoreductase Electron transport 1.1ns 2.3 0.3 0.8
TC95262 Blue copper protein precursor Electron transport 3.1 1.6 1.9 1.3ns
TC103046 Thioredoxin-like 4 Electron transport 2.1 1.3 5.3 1.8
TC96215 Thioredoxin H2 Electron transport 0.6 2.4 0.4 0.7
TC104708 Thioredoxin H2 Electron transport ND 2.4 1.3ns 3.0
TC104047 Thioredoxin 3 Electron transport 0.9 2.3 0.8 3.8
BM813626 Ascorbate peroxidase Response to oxidative stress 0.7 0.9 1.6 2.6
TC101862 Alternative oxidase 3 Alternative respiration GO:0010230 1.3 0.8 1.7 2.0
TC95582 Tyrosine aminotransferase Vitamin E biosynthesis GO:0010189 1.5 2.5 8.3 ND
TC100815 4-hydroxyphenylpyruvate dioxygenase Vitamin E biosynthesis 1.2 1.1 2.3 1.3
TC108214 Glutathione S-transferase GST 5 Response to oxidative stress 2.2 ND 1.4 1.4
TC100556 Glutathione-S-transferase Response to oxidative stress 2.2 1.1 2.3 ND
TC105598 Probable glutathione S-transferase Response to oxidative stress 1.3 1.4 2.3 1.0ns
TC95231 Probable glutathione S-transferase Response to oxidative stress 1.3 1.0 2.1 0.8
TC106943 Glutathione S-transferase GST 8 Response to oxidative stress 1.3 1.0ns 2.1 ND
TC94362 Glutathione S-transferase GST 8 Response to oxidative stress 1.2 1.2 2.0 1.0
TC106973 Glutathione S-transferase Response to oxidative stress 1.1 1.3 3.3 ND
TC95247 Glutathione S-transferase GST 14 Response to oxidative stress 1.0ns 0.7 2.2 0.2
TC95380 Glutathione S-transferase GST 15 Response to oxidative stress ND 1.2 0.5 0.8
TC108817 Glutathione S-transferase GST 11 Response to oxidative stress ND 1.7 0.7 0.4
Pathogenesis-Related (PR) Proteins
TC93997 PR-protein PR-4 Defense response GO:0006952 2.6 1.7 5.0 2.1
BQ138448 PR- protein Defense response ND 1.3 2.3 3.2
TC101688 PR-protein 4A Defense response 0.6 1.0ns 2.7 1.4
TC94004 PR-protein 4A Defense response 0.6 0.9 2.7 1.6
TC94274 Thaumatin-like protein PR-5b precursor Response to pathogen GO:0042828 1.3 1.0 2.1 1.8
TC107543 Thaumatin-like protein Response to pathogen 1.6 1.1 2.7 1.9
TC96745 PR-protein homolog Defense response 1.5 1.2 1.6 2.4
TC102065 β-1,3-glucanase (putative) Carbohydrate metabolism 2.4 0.5 2.3 3.0
TC96253 β-1,3-glucanase like protein Carbohydrate metabolism 2.3 1.3 2.0 0.9
Isoflavonoid Biosynthesis
TC94931 Cytochrome P450 Electron transport 2.5 1.4 2.2 1.6ns
TC101508 Isoflavone 2'-hydroxylase Electron transport 1.6 1.0ns 2.6 1.5
TC95424 Isoflavone 3'-hydroxylase Electron transport 1.8 0.9 3.8 ND
TC96039 Isoflavone reductase related protein Response to oxidative stress 1.8 0.9 3.1 1.2
TC106939 Isoflavone synthase putative Electron transport 1.3 ND 2.2 1.0ns
TC97999 Cytochrome P450 monooxygenase Electron transport 1.2 0.9 2.1 1.4
Stress Response
TC108137 ABA-responsive protein-like Response to desiccation GO:0009269 1.7 1.4 2.7 1.3
TC108387 Abscisic acid-responsive protein Response to desiccation 1.8 1.2 2.5 2.0
TC106508 Abscisic stress ripening protein homolog Response to desiccation 1.3 1.3 2.6 2.7
BG454018 Late embryogenesis abundant protein Response to desiccation 5.5 0.8ns 12.9 1.2
TC94387 Late embryogenesis abundant protein 2 Response to desiccation 1.5 1.1 4.2 0.9
TC94389 Late embryogenesis abundant protein 2 Response to desiccation 1.8 1.2 5.1 0.9
TC94508 Seed maturation protein LEA 4 Response to desiccation 1.9 1.0 4.6 0.9
TC101519 Patatin-like protein 1 Lipid metabolism GO:0006629 3.6 0.7 6.6 0.5
TC101298 Glucosyl transferase Metabolism GO:0008152 0.5 0.6 2.0 ND
TC94863 Glucosyltransferase putative Metabolism 1.6 0.8 2.3 ND
TC100689 Glucosyltransferase-6 Metabolism 1.6 1.5 2.0 1.5
TC110504 Glucosyltransferase-7 Metabolism 1.4 1.4 6.3 ND
TC103147 Tumor-related protein Unknown 0.5 0.7 2.3 4.2
TC107043 ER6 protein (universal stress protein) Response to stress GO:0006950 0.3 1.2 0.7 2.8
TC110393 Heavy metal domain containing protein Metal ion transport GO:0030001 0.6 0.9 0.9ns 4.0
TC103767 Universal stress protein Response to stress 1.1ns 0.8 1.4 3.1
TC95896 Dehydration responsive element binding Regulation of transcription GO:0006355 1.6 ND 3.5 0.7
TC110815 AP2 domain transcription factor Regulation of transcription 1.1 1.2 2.4 0.9ns
TC111267 Probable WRKY transcription factor 23 Regulation of transcription 1.5 1.3 2.4 1.4
TC102282 Probable WRKY transcription factor 28 Regulation of transcription 1.6 1.4 2.0 1.3ns
TC101761 Putative WRKY4 transcription factor Regulation of transcription 1.3 1.0ns 3.2 1.2
TC97324 WRKY-type DNA binding protein Regulation of transcription 1.8 1.3 3.5 0.9
TC103586 ZPT2 Regulation of transcription GO:0045449 2.9 ND 3.5 ND
Cell Death
TC103771 Ethylene up-regulated gene ER66 Ethylene signaling pathway GO:0009873 2.6 1.2 3.8 2.3
TC105302 Subtilisin-like proteinase Proteolysis and peptidolysis GO:0006508 2.4 1.3 1.9 1.4
TC95356 probable serine proteinase Proteolysis and peptidolysis 2.3 1.1ns 1.8 1.3
TC103618 Subtilisin-like protease Proteolysis and peptidolysis 2.3 1.2 1.8 1.2
TC103261 Papain-like cysteine proteinase Proteolysis and peptidolysis 2.8 0.9 4.7 ND
TC101194 T1N15.5 Apoptosis GO:0006915 2.0 1.1 1.5 0.9
TC112103 Subtilisin-type protease Proteolysis and peptidolysis 1.8 0.9 1.1ns 2.3
TC107719 Putative cell death associated protein Unknown 0.9 1.1 0.8 2.2
TC107153 Cystatin Cysteine protease inhibitor GO:0004869 1.8 1.2 2.4 1.3
TC94966 Cystatin Cysteine protease inhibitor 0.4 0.9ns 0.4 1.6
BI310700 Cystatin Cysteine protease inhibitor 0.4 1.0 0.4 1.7
Senescence
TC101276 Rhodanese-like family protein Aging GO:0007568 2.3 1.4 2.0 ND
TC101956 Senescence-associated protein sen1 Aging 2.1 0.8 5.2 1.3
TC107982 Probable senescence-related protein Aging 1.2 ND 3.4 1.5
TC107460 Ntdin Aging 1.4 1.1 2.1 1.3
TC94722 Putative senescence-associated protein Aging 0.1 1.8 0.3 5.6
TC107766 SRG1 protein Aging 0.8 0.4 0.8 0.8
Unknown/Miscellaneous
TC105342 MATE Unknown 39.8 33.9 51.3 23.7
TC102211 GAST-1 protein precursor Response to gibberellic acid stimulus 2.2 2.1 1.9 1.3
TC111698 COBRA-like gene Unknown 16.3 1.7 18.8 ND
TC95697 F-box protein Unknown 5.0 1.1ns 1.4 ND
TC108263 E3 ubiquitin ligase SCF complex Protein catabolism GO:0006511 2.2 1.4 1.7 1.5

TIGR TC, The Institute for Genomic Research Tentative Consensus sequence ID version 8.0; Tentative Annotation, based on TIGR/NCBI tBLASTx tool; GO = Gene Ontology; Fold Change = ratio of transcript abundance in Al treatment/transcript abundance in control (-Al) treatment; ns = not significant; ND = not detected.