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Table 3 Organ-enhanced TF genes

From: A community resource for high-throughput quantitative RT-PCR analysis of transcription factor gene expression in Medicago truncatula

A Root-enhanced TF genes identified by real-time RT-PCR
  Real-time RT-PCR Expression Ratio Affymetrix Expression Ratio  
Accession Number R/L R/S R/F R/P R/N R/L R/S R/F R/P R/N Affymetrix Chip ID
AC140721_12.1 121.5 320.1 1623.4 2676.5 64.4 161.2b 144.5b 219.2b 158.1b 99.9 Mtr.50075.1.S1_s_at
AC135101_25.1 312.2 438.0 291.6 787.0 61.3 n n n n n n
AC140721_14.1 1204.9 751.2 956.6 6296.6 32.6 n n n n n n
AC140031_3.1 275.4 1157.3 923.4 258916.9a 31.1 0.4 0.7 0.8 0.9 2.2 Mtr.47227.1.S1_s_at
AC140721_13.1 39.9a 179.8 614.8 935.1a 26.5 35.9 48.1b 41.2 44.2b 39.5 Mtr.50074.1.S1_at
AC140031_7.1 360.2a 830.6 1542a 6868.8 19.7 0.7b 1b 1.1b 1b 0.9b Mtr.47229.1.S1_at
AC146574_6.1 1095.7 11.9 a 48.8 51.8 88.8 1.2b 1.1b 1.3b 1.1b 1.2b Mtr.40781.1.S1_s_at
AC125478_13.7 1117.4 7008.0 3264.9a 7256.6 11.6 211.5b 248.8b 296.4b 228.7b 45.3 Mtr.15416.1.S1_at
AC125478_7.2 1052.3 503.3 938.4a 2754.5 11.2 n n n n n n
AC122726_21.111 50.0 48.0 20943.9 2658.6 10.4 74.3b 76.4b 72.8b 82.8b 26.6 Mtr.15568.1.S1_s_at
B Nodule-enhanced TF genes identified by real-time RT-PCR
  Real-time RT-PCR Expression Ratio Affymetrix Expression Ratio  
Accession Number N/L N/S N/F N/P N/R N/L N/S N/F N/P N/R Affymetrix Chip ID
AC148816_3.2 9966.7 1826.2 6262.9 21709.1 662.7 434.6b 516.8b 455b 521.7b 551.4b Mtr.14503.1.S1_at
AC147774_3.2 55.2 a 466.7 726.3 881.2 498.5 17.7b 16b 17.8b 19.1b 16.1b Mtr.19554.1.S1_at
AC138056_33.241 43.9 93.2 18.3 17.3 13.1 0.9b 0.8b 0.8b 1.1b 1.1b Mtr.17993.1.S1_at
AC124214_39.2 121.8 92.1 44.8 64.9 10.5 n n n n n n
C Pod-enhanced TF genes identified by real-time RT-PCR
  Real-time RT-PCR Expression Ratio Affymetrix Expression Ratio  
Accession Number P/L P/S P/F P/N P/R P/L P/S P/F P/N P/R Affymetrix Chip ID
AC143340_4.7 154.1 44.8 173.3 180.3a 407.3 1.6b 1.8b 1.7b 1.7b 1.7b Mtr.17931.1.S1_at
D Flower-enhanced TF genes identified by real-time RT-PCR
  Real-time RT-PCR Expression Ratio Affymetrix Expression Ratio  
Accession Number F/L F/S F/P F/N F/R F/L F/S F/P F/N F/R Affymetrix Chip ID
AC129092_13.1 40.3 383.3 65.1 1683.9 318.1 24.2 47.1b 38.2 45.4b 55.1b Mtr.16432.1.S1_at
AC148485_10.1 476.2 203.7 27.2 174.6 44.5 36.5b 32.9b 22.0 34.7b 29.7b Mtr.20392.1.S1_at
AC140915_20.1 169.5 101.1 18.6 481.0 178.7 1.4b 1.4b 1.3b 1.3b 1.6b Mtr.51688.1.S1_at
AC141107_50.2 38.2 33.0 17.9 114.0 97.4 n n n n n n
AC144731_15.21 64.4 44.3 33.6 61.5 16.3 0.6b 0.6b 0.8b 0.8b 0.8b Mtr.19093.1.S1_at
AC150978_12.1 235.3 198.5 48.4 14.0 16.9 n n n n n n
AC141107.5.61 261.1 127.8 13.3 96.4 71.5 0.9b 0.9b 0.8b 0.1b 1.1b Mtr.51651.1.S1_at
AC157472_19.1 60.2a 92.1 13.2 61.5a 113.6 n n n n n n
AC148527_19.141 188.4 42.1 17.3 26.5 13.0 n n n n n n
AC144726_6.1 254.7 55.2 10.9 112.7a 754.7 59.2 73.7b 7.6 89.2 97.9b Mtr.19024.1.S1_at
AC157488_16.1 7053.2a 141.1 18.7 81.8 10.7 n n n n n n
AC123899_15.181 10.2 92.2 19.1 62.8 24.9 0.9b 0.5b 0.8b 0.1b 0.8b Mtr.52015.1.S1_at
  1. A TF gene was considered organ-enhanced if transcript levels for that gene were more than 10-fold higher in one organ than in any other organ. Transcript ratios were calculated using the mean of three biological replicates for each organ. Data from qRT-PCR are compared with data for the same RNA samples obtained from Affymetrix Gene chips [38]. Affymetrix data were normalized using the Robust Multiarray Average (RMA) method, as described by [38], prior to calculation of ratios. Data in bold represent the lowest transcript ratio of the corresponding gene across all organs. n = not present on Affymetrix chip; a = Ct > 40 in two or three biological replicates of denominator organ; b = transcript called 'absent' by Affymetrix software in two or three biological replicates of denominator organ. L = leaf; S = stem; P = pod; F = flower; R = root; N = nodule.