Table IV. The most differentially expressed genes in shoots

Of all the differentially expressed genes, only those with at least 2-fold changes, and maximal 15 genes for each different response pattern, are listed. Expression changes are given as log2. Expression changes in boldface correspond to genes differentially expressed at the significance threshold of Bonferroni P < 0.05

Arabidopsis Genome Initiative No.Gene DescriptionShootRoot
0 to 2 d2 to 10 d0 to 10 d0 to 2 d2 to 10 d0 to 10 d
Transiently differentially expressed at day 2
 AT1G70260Unknown protein; nodulin MtN21 family protein1.14−0.100.731.330.201.41
 AT2G33380RD20 (RESPONSIVE TO DESICCATION20)1.00−0.350.220.110.03−0.07
 AT2G28000CPN60A; ATP-binding/protein-binding; Rubisco  subunit-binding protein α-subunit−1.04−0.25−0.720.08−0.360.11
Rapidly changed and stayed high/low
 AT3G19700Protein kinase/branched-chain-amino  acid transaminase1.27−0.241.27−0.51−0.18−0.77
 AT5G23010MAM1; 2-isopropylmalate synthase 3 (IMS3)0.95−0.341.14−0.70−0.51−1.28
 AT1G62560Disulfide oxidoreductase/monooxygenase,  FMO family protein0.950.040.90−0.110.02−0.23
 AT4G03060AOP2 (ALKENYL HYDROXALKYL-PRODUCING2)0.90−0.330.940.12−0.16−0.16
 AT1G67870Unknown protein; Gly-rich protein0.860.410.94−0.760.08−0.32
 AT4G30530Catalytic; defense-related protein, putative0.85−0.051.22−0.640.25−0.97
 AT4G28220NADH dehydrogenase/disulfide oxidoreductase  unknown protein0.830.551.11−0.34−0.12−0.17
 AT1G21440Catalytic/isocitrate lyase; mutase family protein0.83−0.301.06−0.45−0.50−1.23
 AT2G17470Unknown protein0.79−0.140.890.140.09−0.04
 AT3G09390MT2A (METALLOTHIONEIN2A)_ metallothionein  protein, putative (MT2A)0.790.521.260.050.460.48
 AT4G24010ATCSLG1; cellulose synthase family protein0.780.401.36−0.04−0.04−0.01
 AT4G12030Bile acid:sodium symporter; bile acid:sodium  symporter family protein0.73−0.241.14−0.30−0.15−0.54
 AT1G22160Unknown protein; senescence-associated  protein-related0.730.301.850.260.101.88
 AT5G07460PMSR2 (PEPTIDEMETHIONINE SULFOXIDE  REDUCTASE2), putative0.71−0.290.950.130.34−0.11
 AT1G54410Unknown protein; dehydrin family protein0.690.181.20−0.460.08−0.43
 AT1G73480Catalytic/hydrolase; hydrolase, α/β-fold family  protein−0.75−0.25−2.030.27−0.080.18
 AT2G31430Invertase/pectin methylesterase inhibitor  family protein−0.790.03−0.93−0.01−0.12−0.23
 AT3G58610Ketol-acid reductoisomerase; ketol-acid  reductoisomerase−0.80−0.18−1.00−0.05−0.52−0.25
 AT2G24050RNA binding; MIF4G domain-containing  protein/MA3 domain-containing protein−0.800.02−0.920.24−0.240.17
 AT1G72370P40; structural constituent of ribosome; 40S  ribosomal protein SA (RPSaA)−0.81−0.47−0.980.23−0.770.02
 AT5G22650HD2B (HISTONE DEACETYLASE2B)−0.81−0.01−1.080.74−0.620.33
 AT3G48990AMP binding/catalytic; AMP-dependent synthetase  and ligase family protein−0.830.26−1.20−1.06−0.18−1.44
 AT3G44990XTR8; xyloglucan:xyloglucosyl transferase, putative−0.88−0.19−0.920.020.250.69
 AT1G55490CPN60B (CHAPERONIN60 BETA); Rubisco  subunit-binding protein β-subunit−0.92−0.09−1.650.06−0.16−0.08
 AT5G35630GS2 (GLN SYNTHETASE2)−0.95−0.31−2.77−0.040.400.07
 AT3G24420Catalytic/hydrolase; hydrolase, α/β-fold family  protein−0.97−0.21−1.04−0.170.08−0.25
 AT3G56090ATFER3; binding/ferric iron-binding−1.040.00−1.190.290.050.70
 AT5G63310NDPK2 (NUCLEOSIDE DIPHOSPHATE KINASE2)−1.10−0.54−1.730.00−0.12−0.19
 AT2G43820UDP-glycosyltransferase/transferase−1.13−0.34−1.57−0.34−0.54−1.19
 AT4G02380SAG21 (SENESCENCE-ASSOCIATED GENE21)−1.95−0.08−1.88−1.82−0.10−2.11
Differential expression increased during starvation
 AT1G66390PAP2 (PRODUCTION OF ANTHOCYANIN  PIGMENT2)1.303.415.110.15−0.04−0.07
 AT5G17220ATGSTF12 (GLUTATHIONE S-TRANSFERASE26); glutathione transferase1.562.994.92−0.290.13−0.40
 AT4G32930Unknown protein GAMMA-VPE; Cys-type  endopeptidase/legumain1.372.344.541.161.712.61
 AT5G42800DFR (DIHYDROFLAVONOL 4-REDUCTASE)1.112.824.210.130.000.07
 AT3G16150Asparaginase; l-asparaginase, putative/l-Asn  amidohydrolase, putative1.132.454.110.490.391.38
 AT1G56650PAP1 (PRODUCTION OF ANTHOCYANIN  PIGMENT1)1.371.523.910.07−0.08−0.12
 AT5G07990TT7 (TRANSPARENT TESTA7); flavonoid  3prim-monooxygenase0.862.543.88−0.070.13−0.09
 AT3G22840ELIP1 (EARLY LIGHT-INDUCIBLE PROTEIN)0.822.183.660.650.05−0.07
 AT2G47880Arsenate reductase1.641.703.590.050.150.26
 AT1G34060C-sulfur lyase; alliinase family protein1.032.443.350.270.160.87
 AT5G15500Protein binding; ankyrin repeat family protein1.171.852.880.000.07−0.19
 AT5G54060Transferase, transferring glycosyl groups;  glycosyltransferase family protein0.622.422.82−0.020.050.02
 AT5G53420Unknown protein0.721.472.750.520.581.67
 AT1G23130Unknown protein; Bet v I allergen family protein0.811.102.72−0.20−0.06−0.15
 AT1G62710BETA-VPE; Cys-type endopeptidase0.681.472.680.080.351.13
Differential expression increased from day 2
 AT2G28900Protein translocase/Tim17/Tim22/Tim23 family  protein0.062.102.59−0.310.230.33
 AT5G13930CHS (CHALCONE SYNTHASE)0.292.052.51−0.110.04−0.40
 AT4G22880LDOX (TANNIN-DEFICIENT SEED4);  leucoanthocyanidin dioxygenase, putative0.441.802.650.040.190.08
 AT1G28330DRM1 (DORMANCY-ASSOCIATED PROTEIN1)0.251.802.290.390.751.05
 AT5G37600ATGSR1; Glu-ammonia ligase; Gln synthetase,  putative0.391.732.550.650.410.87
 AT5G11670Malic enzyme0.141.602.61−0.400.270.17
 AT1G10070Branched-chain-amino acid transaminase/catalytic  unknown protein0.281.452.72−0.070.710.35
 AT1G76520Auxin:hydrogen symporter; auxin efflux carrier  family protein0.541.432.400.060.640.32
 AT2G25940ALPHA-VPE; Cys-type endopeptidase0.411.302.450.531.381.03
 AT2G03590ATUPS1; allantoin transporter0.281.272.350.860.281.26
 AT3G52180Phosphoprotein phosphatase (PTPKIS1)0.561.212.480.030.160.21
 AT4G19430Unknown protein0.511.152.55−0.020.06−0.07
 AT1G76530Auxin:hydrogen symporter; auxin efflux carrier  family protein0.371.122.430.060.750.43
 AT1G54575Unknown protein0.161.102.470.651.252.01
 AT2G29670Unknown protein−0.101.092.250.330.180.56
 AT5G25460Unknown protein−0.59−0.69−2.180.29−0.420.41
 AT4G16980Nutrient reservoir; arabinogalactan-protein family−0.55−0.83−2.36−0.16−0.23−0.16
 AT2G41560ACA4 (AUTOINHIBITED CA2+-ATPASE, ISOFORM4)−0.26−1.05−2.37−1.07−0.51−0.69
 AT2G27420Cys-type endopeptidase/Cys-type peptidase0.15−1.18−2.23−0.040.010.04
 AT2G36120Unknown protein; pseudogene, Gly-rich protein−0.17−1.20−2.22−0.61−0.69−2.51
 AT3G08740Translation elongation factor; elongation factor  P (EF-P) family protein−0.58−1.21−2.22−0.06−0.27−0.47
 AT1G29070Structural constituent of ribosome; ribosomal  protein L34 family protein−0.51−1.28−2.35−0.14−0.40−0.42
 AT3G63160Unknown protein−0.47−1.33−2.19−0.02−0.01−0.04
 AT3G10360RNA binding; pumilio/Puf RNA-binding  domain-containing protein−0.40−1.34−2.20−0.36−0.28−0.63
 AT1G02820Late embryogenesis abundant 3 family  protein/LEA3 family protein0.44−1.39−2.89−1.170.07−1.71
 AT1G11850Unknown protein−0.46−1.43−2.45−0.030.00−0.16
 AT1G14880Unknown protein0.05−2.09−2.70−0.370.75−0.01
 AT4G27290S-locus protein kinase, putative0.21−2.14−2.55−0.200.14−0.21
 AT5G18600Arsenate reductase (glutaredoxin)−0.58−2.16−3.04−0.080.03−0.14
 AT3G19030Unknown protein−0.17−2.51−4.45−0.320.53−0.14