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Table 4 Changes of transcript abundance of known cytokinin-regulated genes of Arabidopsis thaliana

From: Transcript profiling of cytokinin action in Arabidopsis roots and shoots discovers largely similar but also organ-specific responses

Category AGI Description Ratio Significance code Previously published in
    Root Shoot    
    CKX1 vs. BA0 BA15 vs. BA0 BA120 vs. BA0 BA1080 vs. BA0 CKX1 vs. BA0 BA15 vs. BA0 BA120 vs. BA0 BA1080 vs. BA0 Cytokinin effect Interaction effect  
root-specific AT2G40230 transferase family protein 1.07 0.81 2.72 2.99 2.32 0.93 1.18 2.13 ** · A B C E
  AT1G67110 cytochrome P450, cytokinin hydroxylase (CYP735A2) 0.61 4.20 60.65 29.72 2.09 1.05 0.90 2.06 *** *** A C E F
  AT2G01830 histidine kinase CRE1/AHK4 0.64 1.39 4.14 0.77 1.60 1.38 0.83 1.92   * A C F
  AT4G16990 disease resistance protein TIR-NBS-LRR class 0.13 0.60 0.47 2.63 0.87 0.57 1.02 0.88 * * A F
  AT4G19170 9-cis-epoxycarotenoid dioxygenase 0.93 0.3 0.18 1.08 1.55 0.68 0.59 0.64 **   A F
  AT1G17190 glutathione S-transferase 1.77 2.85 7.63 1.07 1.75 1.20 0.77 0.56 * * C F
  AT5G47980 transferase family protein 0.35 1.61 6.18 14.36 0.82 0.47 0.56 2.00 ** * C F
shoot-specific AT3G48750 A-type cyclin-dependent kinase 0.95 1.00 1.40 0.65 4.01 8.78 7.92 1.84 ·   A E
  AT3G62930 glutaredoxin family protein 1.97 2.10 2.06 2.10 0.36 0.88 1.58 2.03 * · C E
  AT3G21670 nitrate transporter NTP3 0.84 0.70 0.72 1.36 2.00 2.66 2.65 4.47 *   C F
  AT5G53290 ERF/AP2 subfamily B-5 member (CRF3) 1.00 2.28 1.71 0.79 3.03 5.47 7.94 6.26 *** *** D
in both organs AT1G69530 expansin At-EXP1 0.89 1.52 2.18 13.23 0.93 1.00 1.27 4.16 ***   A B C E
  AT4G29740 cytokinin oxidase CKX4 0.09 0.43 4.30 2.88 0.83 1.20 1.90 4.44 *** ** A C E F
  AT1G19050 A-type response regulator ARR7 0.31 4.53 14.48 0.97 0.63 2.57 9.23 2.07 ***   A B F
  AT2G40670 A-type response regulator ARR16 0.75 2.73 12.36 1.58 2.04 0.82 4.93 5.68 *   A B F
  AT2G01830 histidine kinase (CRE1/AHK4) 0.64 1.39 4.14 0.77 1.60 1.38 0.83 1.92   * A C F
  AT1G10470 A-type response regulator ARR4 0.21 0.64 2.53 2.10 0.27 0.93 1.20 1.61 ***   A B
  AT2G38750 annexin 0.09 1.73 10.8 6.06 1.15 1.80 2.53 0.69 *** ** A C
  AT5G64620 invertase/pectin methylesterase inhibitor family protein 1.54 0.67 0.71 0.38 0.11 0.37 0.30 0.47 ** *** A C
  AT2G20520 fasciclin-like arabinogalactan-protein FLA6 1.65 0.54 1.97 6.21 4.24 1.18 2.64 1.00 · · A E
  AT2G35980 harpin-induced family protein YLS9 0.03 1.67 4.25 5.87 3.26 4.39 1.02 5.26 *** *** A F
  AT4G10120 sucrose-phosphate synthase, putative 4.24 1.20 0.41 5.24 2.76 1.38 1.87 0.71 · · A F
  AT4G27410 no apical meristem (NAM) family protein RD26 0.78 0.60 1.68 2.62 0.44 0.70 0.85 0.82 *   B F
  AT1G13420 sulfotransferase family protein 0.48 0.68 15.48 1.41 5.43 1.82 0.59 1.00   ** C F
  AT3G50300 transferase family protein 1.92 1.91 5.25 3.00 2.38 0.12 0.28 1.45   · C F
  AT3G57010 strictosidine synthase family protein 1.24 1.41 7.99 4.19 9.13 2.47 4.27 7.07 *** * C F
  AT5G42590 cytochrome P450 CYP71A16 0.76 0.77 11.73 1.74 1.14 0.36 0.38 0.54 ** *** C F
  AT5G51440 mitochondrial small heat shock protein HSP23.5-M 15.18 3.34 3.32 5.58 0.88 1.42 14.16 2.29 * * C F
  AT1G75820 CLAVATA1 receptor kinase (CLV1) 2.63 1.05 0.79 0.54 0.42 0.34 0.32 0.09 *** *** A
  AT5G57090 auxin transport protein (EIR1) 3.66 2.12 0.89 0.59 35.26 1.36 1.15 0.86 *** * A
  AT5G62920 A-type response regulator ARR6 0.12 1.62 2.35 1.73 0.26 1.28 1.72 0.96 *** · B
  AT3g61630 ERF/AP2 member (CRF6) 1.59 0.93 0.97 3.37 0.27 0.84 0.65 1.31 *** *** D
  1. A selection of previously published cytokinin-responsive genes from various publications reporting changes within 24 h were analyzed for their changes in transcript abundance in response to cytokinin induction or cytokinin deficiency in root and shoot samples. Expression ratios are coded by font-variants as described for Table 1. Significance codes indicate p-values calculated as described in Methods: 0.1 > · > 0.05 > * 0.01 > ** 0.001 > ***. Genes that were published in at least two previous publications and selected examples of known regulated genes that were only published once are listed here. In addition, selected examples of known regulated genes that were only published once were added. A more comprehensive list of genes can be found in Additional file 9: Table S5. The publications are coded by letters: A, Rashotte et al., 2003 [15]; B, Brenner et al., 2005 [9]; C, Kiba et al., 2005 [13]; D, Rashotte et al., 2006 [16]; E, Taniguchi et al., 2007 [17]; F, Argyros et al., 2008 [6]. AGI, unique gene identifier assigned to Arabidopsis thaliana genes by TAIR.