Table 1.

Auxin-Induced Genes

Auxin Induction (fold)c
CategoryCoded Protein/Other FeaturesaGenBank
 NumberAffymetrix
 NumberNumber of
 AuxREsbSHY2shy2-2shy2-24
Previously identified
auxin-regulated genes
IAA1AAA1656913289712.44.69.7
IAA2AAB971641329733.83.5d7.5
IAA5 AAC4904613660377.24.469.0
IAA6 AAC490471366144.01.25.5
IAA13AAB806491329324.33.2d4.3
IAA19AAB8435613296717.7513.6
IAA20 AAB843571329844.5−1.24.7
SAUR-1eCAB454382048812.7−1.93.1
SAUR-9CAA1850512947NDf31.82.5
SAUR-10AAD201251378135.5−1.34.6
SAUR-13CAB386181969532.6−12.4
SAUR-15AAB3052712608215.51.117.9
SAUR-25CAB368431339534.31.65.4
GH3-1eAAC6129212553214.4 6.925.7
GH3-2CAB3820613565ND17.912.116.8
GH3-3AAB8711416995674.5137.4d131.2
GH3-5CAA197201698948.4 5.411.1
ACS4AAA850391710733.31.24.1
ACS6AAC638501289153.2 2.5d3.1
ACS8 CAB3892516387620.64.020.7
Transcription related
HAT2AAA569011895049.3 4.58.9
Zinc finger protein AAA8729816581714.44.511.9
ARF19 (IAA22)eAAB9132113300ND2.92.12.8
Putative heat shock transcription factorAAB8435018765ND 3∼2.8∼5.3
Contains similarity to GATA-type zinc fingersAAB6105817180ND∼8.03.4d∼6.7
Signal transduction
Similar to protein kinasesAAD306301687855.6 2.75.5
Putative protein kinase AAC318481500527.42.65.6
Receptor protein kinase–like protein CAA182161941812.8 1.9d3.3
Putative protein kinaseAAC3435719025ND4.21.9d4.1
Putative receptor-like protein kinaseAAC0276614112ND3.62.54.4
Putative protein kinaseAAC7962112388ND2.6∼4.91.9
Putative protein kinaseAAC1452212357ND2.52.12.7
Transport
Similar to nitrate and oligopeptide transporters AAD393171983533.6 1.43.8
AUX1-like amino acid permeaseAAD2981120612ND2.722.7
Cell wall establishment
Putative expansin AAB875771966032.5 1.63
Similar to xyloglucan endotransglycosylase–  related protein XTR4AAD395771949042.6−1.13.2
Contains similarity to expansinsAAC728581934623.41.7d5.4
Similar to putative glucan synthaseAAF2482218515ND3.6∼2.7−1.2
Putative glucosyl transferaseAAD2015615496ND3.43.22.7
Metabolic enzymes
Putative cytochrome P450 AAC342281904568.82.7 2.3
Cytochrome P450–like proteinCAB382041403243.94.8d 3.7
Similar to mitochondrial protein and
   AAA-type ATPaseCAB460041542416.22.0d6.9
Peroxidase ATP24a CAA724841894632.91.5 4.2
Lupeol synthase AAD050321565343.0−1.5d5.5
Similar to mandelonitrile lyase AAD393051886982.82.1 3
Spermine synthase AAF013111799965.22.1d 5.9
Glutamate decarboxylaseAAA337091850863.31.9d 2.7
Similar to glutaredoxinAAB078731476635.92.96.4
Short-chain alcohol dehydrogenase–like  protein CAB4192820685ND3.23.1 4.1
12-oxophytodienoate reductase OPR1AAC7844018253ND2.63.42.6
Putative glutathione S-transferaseAAC951961896642.64.73.6
Putative alanine acetyl transferaseAAD1540214918ND∼4.8∼3.2∼3.3
Putative laccase (diphenol oxidase)AAD2017717287ND∼4.5∼2.52.3
MonooxygenaseCAA075741787753.54.13.5
Putative peroxidaseAAD2235720328ND∼4.6∼2.8∼5.0
Similar to indole-3-acetate
   β-glucosyltransferaseAAD3062720297ND3.32.53.3
Putative pectinesteraseAAC6285517338ND2.52.12.9
Others
Similar to TOLB (colicin tolerance) protein  precursorAAC8059920519ND4.83.13.5
GASA5AAA9852019565ND3.62.63.4
DehydrinAAB0037419186ND3.33.45.5
ATAF2CAA5277218591ND2.52.13.1
Similar to hookless1 (HLS1)AAC17822201222∼13.7∼10.0∼10.7
Translation factor EF-1 α–like proteinCAA1656313439ND 42.12.5
Unknown
Hypothetical protein CAB1051613016213.75.815.8
Hypothetical protein AAD15394120953 72.9 3.5
Putative proteinCAB396131495133.92.2 4.1
Unknown proteinAAD214431888523.41.8 3.5
Hypothetical protein AAD237261618065.72.5d4.2
Unknown protein AAC2782812090421.63.714.5
Hypothetical protein AAD2372515288114.62.8 6.2
Predicted protein of unknown functionAAD226491365634.74.14.5
Unknown proteinAAB8262216247ND4.33.24.1
Unknown proteinAAC6364020550ND3.21.93.3
Hypothetical proteinAAC2417717154ND∼3.82d∼4.0
  • a Boldface indicates that shy2-2 causes less auxin induction compared with the wild type. Roman indicates that the auxin induction is not affected by shy2-2.

  • b Number of TGTC_C and G_GACA sequences in the 2-kb fragments upstream of the start codon.

  • c Fold difference of expression levels after auxin treatment relative to without auxin treatment. ∼ indicates that one of the expression levels for comparison is below the detection limit; therefore, the auxin induction fold is approximate.

  • d shy2-2 had both reduced basal and reduced auxin-induced expression levels.

  • e Gene numbers for ARF, SAUR, and GH3 genes are from Hagen and Guilfoyle (2001).

  • f ND, not determined.