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Table 1 Organ-specific changes of transcript abundance in response to cytokinin treatment

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

Category CATMA ID AbB Ratio FVR p-value cytokinin effect AGI Description
    Root Shoot    
    BA15 vs. BA0 BA120 vs. BA0 BA1080 vs. BA0 BA15 vs. BA0 BA120 vs. BA0 BA1080 vs. BA0    
root-specific CATMA1a44090 9 5.71 75.18 156.88 0.74 0.47 0.52 1.81E-02 AT1G53060 legume lectin family protein
  CATMA1a56420 8 4.19 60.47 29.56 0.90 0.62 1.50 4.72E-03 AT1G67110 cytochrome P450, putative
  CATMA2a32630 11 1.68 0.26 66.01 1.61 0.55 0.83 3.02E-07 AT2G34490 cytochrome P450 family protein
  CATMA4a38980 13 6.85 21.89 16.03 1.50 1.03 0.99 4.49E-03 AT4G37410 cytochrome P450, putative
  CATMA3a15410 8 0.89 19.41 3.14 1.55 1.47 0.71 2.38E-03 AT3G15990 sulfate transporter, putative
  CATMA1a29550 13 0.97 6.93 9.80 0.82 0.89 1.93 1.25E-04 AT1G31320 LOB domain protein 4 (LBD4)
  CATMA5a61330 18 2.56 8.17 5.68 1.21 0.84 1.02 5.89E-04 AT5G65990 amino acid transporter family protein
  CATMA4a30310 28 0.99 0.86 5.08 0.65 0.54 0.81 1.31E-06 AT4G28660 photosystem II reaction centre W (PsbW) family protein
  CATMA5a50360 21 0.49 0.64 5.65 1.00 0.56 1.16 6.90E-06 AT5G54510 IAA-amido synthase
  CATMA3a26362 30 0.93 0.51 4.73 0.98 0.69 1.53 1.35E-05 AT3G26570 phosphate transporter family protein
  CATMA2a00475 24 1.15 1.12 3.41 0.62 0.61 0.55 1.67E-02 AT2G01420 auxin transport protein, putative
  CATMA4a22880 19 0.86 0.45 2.71 0.66 0.46 0.54 2.32E-04 AT4G21280 PsbQ subunit of photosystem II.
  CATMA4a33000 9 1.04 0.64 0.07 1.12 1.79 1.43 7.04E-04 AT4G31320 auxin-responsive protein, putative (SAUR_C)
  CATMA4a20925 12 0.95 0.35 0.04 1.39 0.74 0.71 3.39E-04 AT4G19690 iron-responsive transporter (IRT1)
  CATMA4a11410 6 0.82 0.24 0.08 0.93 1.14 0.97 1.09E-02 AT4G11280 1-aminocyclopropane-1-carboxylate (ACC) synthase
shoot-specific CATMA5a49210 6 2.28 1.71 0.79 5.42 7.91 6.22 2.53E-05 AT5G53290 ERF subfamily B-5 of ERF/AP2 transcription factor
  CATMA2a30720 12 0.82 2.11 0.71 5.49 6.48 7.33 7.58E-03 AT2G32430 galactosyltransferase family protein
  CATMA5a51700 7 1.48 1.64 0.43 3.18 9.71 5.61 5.80E-03 AT5G55920 nucleolar protein, putative
  CATMA3a41735 22 1.00 1.37 0.64 8.68 7.88 1.83 1.21E-01 AT3G48750 A-type cyclin-dependent kinase
  CATMA4a19065 19 2.17 1.45 0.48 3.05 6.26 4.66 1.09E-02 AT4G18040 eukaryotic translation initiation factor 4E 1 (EIF4E1)
  CATMA3a10615 6 0.72 1.35 0.61 2.91 5.89 3.86 2.37E-03 AT3G11670 digalactosyldiacylglycerol synthase 1 (DGD1)
  CATMA1a28980 22 0.57 0.50 1.51 3.39 1.78 2.26 1.19E-02 AT1G30840 purine permease-related
  CATMA2a32773 9 1.19 1.14 1.69 0.83 0.34 0.34 2.80E-02 AT2G34650 protein kinase PINOID (PID)
  CATMA5a53690 31 0.85 0.63 1.80 0.53 0.45 0.39 8.23E-03 AT5G57930 ACCUMULATION OF PHOTOSYSTEM ONE 2 (APO2)
  CATMA1a65110 29 1.04 0.79 0.54 0.34 0.32 0.09 3.96E-07 AT1G75820 CLAVATA1 receptor kinase (CLV1)
  CATMA5a43215 30 0.50 0.80 0.87 0.44 0.18 0.08 3.27E-03 AT5G47230 ERF subfamily B-3 of ERF/AP2 transcription factor (ATERF-5)
  CATMA4a28860 31 0.53 0.50 0.85 0.26 0.17 0.07 8.86E-05 AT4G27280 calcium-binding EF hand family protein
differential CATMA4a13955 22 1.87 1.07 0.22 10.41 4.16 2.68 2.25E-04 AT4G13770 cytochrome P450 family protein
  CATMA5a03540 10 0.71 2.78 5.07 0.44 0.18 0.50 1.01E-02 AT5G04330 cytochrome P450, putative
similar CATMA5a07985 17 2.96 2.22 1.85 14.50 30.04 4.43 2.03E-02 AT5G08640 flavonol synthase 1 (FLS1)
  CATMA3a18390 5 2.90 12.10 4.22 9.20 4.14 2.85 1.05E-03 AT3G18773 zinc finger (C3HC4-type RING finger) family protein
  CATMA2b16180 13 2.72 12.21 8.03 2.92 2.72 2.64 7.70E-03 AT2G17500 auxin efflucarrier family protein
  CATMA4a41340 17 2.58 2.26 3.97 5.32 4.92 10.72 1.08E-04 AT4G39950 cytochrome P450 79B2, putative (CYP79B2)
  CATMA1a18090 15 3.90 12.44 0.83 1.90 6.88 1.54 4.74E-06 AT1G19050 response regulator 7 (ARR7)
  CATMA2a16180 11 1.01 7.02 5.94 3.08 1.61 1.85 1.01E-02 AT2G17500 auxin efflucarrier family protein
  CATMA4a25920 22 3.39 2.18 0.72 3.05 7.24 2.36 1.25E-04 AT4G24190 shepherd protein (SHD)
  CATMA4a20920 12 1.07 1.57 3.05 1.03 4.11 7.38 1.47E-02 AT4G19680 iron-responsive transporter (IRT2)
  CATMA5a46780 4 0.81 4.71 2.55 2.12 2.52 4.32 1.40E-02 AT5G50820 no apical meristem (NAM) family protein
  CATMA5a19900 9 4.76 2.40 1.61 2.80 3.08 2.25 2.14E-02 AT5G22440 60S ribosomal protein L10A (RPL10aC)
  CATMA2a29850 28 2.70 2.11 3.60 2.93 2.57 2.62 8.25E-03 AT2G31610 40S ribosomal protein S3 (RPS3A)
  CATMA1a69100 20 3.03 2.52 2.38 2.11 4.75 1.72 1.99E-02 AT1G79920 heat shock protein 70, putative (HSP70)
  CATMA5a43680 27 2.66 1.68 3.14 3.01 3.43 2.48 1.43E-02 AT5G47700 60S acidic ribosomal protein P1 (RPP1C)
  CATMA4a31370 15 0.43 4.28 3.45 1.19 1.89 4.42 4.75E-05 AT4G29740 FAD-binding domain-containing protein
  CATMA1a48985 6 0.84 3.57 4.63 2.27 1.03 3.28 2.86E-03 AT1G59940 response regulator (ARR)
  CATMA3a45520 17 2.65 1.44 2.74 1.34 2.27 2.94 1.95E-02 AT3G52580 40S ribosomal protein S14 (RPS14C)
  CATMA1a09860 13 2.25 1.17 3.18 3.46 1.96 0.54 7.61E-03 AT1G10970 metal transporter, putative (ZIP4)
  CATMA3a48290 12 2.71 1.42 0.86 4.96 2.26 0.96 1.77E-02 AT3G55280 60S ribosomal protein L23A (RPL23aB)
  CATMA2a26520 26 0.78 0.27 1.61 1.14 0.40 0.74 8.72E-05 AT2G28120 nodulin family protein
  CATMA4a08040 24 0.80 0.58 0.31 1.74 1.08 0.23 1.41E-05 AT4G08290 nodulin MtN21 family protein
  CATMA4a01650 8 1.07 1.03 0.17 1.13 0.81 0.39 9.55E-03 AT4G01450 nodulin MtN21 family protein
  CATMA2a31475 31 0.29 0.82 1.51 0.39 0.46 0.59 3.36E-03 AT2G33310 indoleacetic acid-induced protein 13 (IAA13)
  CATMA1a01400 10 0.62 0.84 0.26 1.12 0.36 0.27 2.11E-02 AT1G02400 gibberellin 2-oxidase
  CATMA4a08050 23 0.52 0.30 0.27 1.10 0.83 0.16 9.93E-06 AT4G08300 nodulin MtN21 family protein
  CATMA2a25030 24 0.56 0.39 0.56 0.64 0.64 0.34 4.80E-03 AT2G26710 cytochrome p450 family
  CATMA1a18780 31 0.77 0.27 0.80 0.73 0.31 0.22 6.34E-05 AT1G19770 purine permease-related
  CATMA3a22995 31 0.63 0.37 0.57 0.35 0.48 0.69 1.67E-02 AT3G23050 indoleacetic acid-induced protein 7 (IAA7)
  CATMA5a59720 22 0.57 0.27 0.78 0.51 0.29 0.19 1.55E-04 AT5G64260 phosphate-responsive protein, putative
  CATMA1a66768 9 1.01 0.46 0.24 0.62 0.20 0.06 8.11E-05 AT1G77640 DREB subfamily A-5 of ERF/AP2 transcription factor
  CATMA1a33270 21 0.78 0.11 0.16 0.55 0.27 0.60 6.69E-05 AT1G35140 phosphate-responsive protein
  CATMA3a25040 24 0.82 0.52 0.13 0.45 0.38 0.06 7.64E-07 AT3G25190 nodulin, putative
  CATMA3a14910 27 0.51 0.30 0.60 0.49 0.22 0.14 2.37E-04 AT3G15500 no apical meristem (NAM) family protein (NAC3)
similar CATMA5a57200 28 0.65 0.33 0.60 0.32 0.12 0.09 9.30E-05 AT5G61600 ERF subfamily B-3 of ERF/AP2 transcription factor
  CATMA1a26550 17 0.71 0.19 0.09 0.69 0.22 0.12 1.61E-05 AT1G28370 ERF subfamily B-1 of ERF/AP2 transcription factor
  CATMA3a14565 31 0.41 0.17 0.70 0.40 0.14 0.17 3.42E-04 AT3G15210 ERF subfamily B-1 of ERF/AP2 transcription factor (ATERF-4)
  CATMA5a47120 23 0.65 0.30 0.33 0.43 0.11 0.08 2.60E-04 AT5G51190 ERF subfamily B-3 of ERF/AP2 transcription factor
  CATMA5a43205 26 0.60 0.43 0.11 0.47 0.18 0.07 2.68E-06 AT5G47220 ERF subfamily B-3 of ERF/AP2 transcription factor
  CATMA2a43300 20 0.42 0.64 0.21 0.36 0.15 0.05 5.73E-04 AT2G44840 ERF subfamily B-3 of ERF/AP2 transcription factor
  CATMA3a54340 27 0.41 0.16 0.26 0.23 0.24 0.14 2.27E-03 AT3G61190 BON1-associated protein 1 (BAP1)
  CATMA5a06800 26 0.85 0.44 0.40 0.90 0.68 0.34 1.93E-06 AT5G07580 ERF subfamily B-3 of ERF/AP2 transcription factor
uncategorized CATMA2a39655 8 0.93 2.15 0.27 2.78 13.61 2.65 2.87E-02 AT2G41310 response regulator 3 (ARR3)
  CATMA1a08395 15 0.58 0.52 1.31 0.32 0.37 0.39 1.12E-02 AT1G09530 phytochrome interacting factor 3 (PIF3)
  CATMA2a37175 9 2.69 4.10 0.81 2.50 1.54 0.56 1.77E-02 AT2G38940 phosphate transporter (PT2)
  CATMA1a68670 23 1.63 1.43 1.36 2.45 3.23 3.06 2.54E-02 AT1G79560 FtsH protease
  CATMA5a43410 15 0.48 0.18 0.00 3.30 0.70 0.10 1.31E-06 AT5G47450 major intrinsic family protein
  CATMA2a31585 30 1.06 0.59 3.55 0.60 0.50 1.29 3.99E-05 AT2G33430 plastid developmental protein DAG
  CATMA2a34435 28 0.96 1.00 2.51 0.86 1.27 1.22 9.89E-05 AT2G36250 chloroplast division protein FtsZ (FtsZ2-1)
  CATMA5a43410 15 0.48 0.18 0.00 3.30 0.70 0.10 1.31E-06 AT5G47450 major intrinsic family protein
  1. The table contains an arbitrary selection of genes showing an organ-specific change of transcript abundance in response to cytokinin treatment. A number of these genes are discussed in the text. The categorization of genes was performed as described in Methods and in Additional file 1: Figure S1. Expression ratios in roots and shoots at different time points in relation to the control are given and coded by different font variants: bold, upregulation; italics, downregulation; regular, no regulation. CATMA ID, unique identifier for the gene specific tag (probe) on the microarray (data can be queried under http://www.catma.org); AbB, number of spots above background (a rough measure for expression strength); AGI, unique gene identifier assigned by TAIR; Description, edited TAIR database annotation. FDR corrected p-values ≤ 0.03, indicating whether a gene was significantly regulated by cytokinin, are marked with bold numbers.