Table I.

Significance analysis of genes differentially expressed in response K+ starvation and resupply

FDR %DownUpDownUp
Starvation (Shoots, n = 3)Starvation (Roots, n = 3)
<0.0011 (2.91)4 (7.57)1 (3.08)1 (4.1)
<0.011 (2.91)19 (2.75)4 (2.14)11 (2.63)
<0.18 (1.62)45 (1.89)22 (1.72)35 (1.95)
<117 (1.45)99 (1.52)150 (1.49)149 (1.53)
<1043 (1.33)224 (1.3)473 (1.30)417 (1.30)
Resupply (2 h Roots K(Na) and K(0), n = 6)
<0.00123 (1.59)13 (1.51)
<0.0140 (1.45)25 (1.45)
<0.172 (1.36)55 (1.40)
<1177 (1.28)210 (1.21)
<10658 (1.14)801 (1.10)
Resupply (2 h Shoots K(Na) and K(0), n = 6)Resupply (6 h Shoot K(Na) and K(0), n = 6)
<0.0015 (1.51)0104 (1.55)50 (1.57)
<0.017 (1.45)0152 (1.45)89 (1.44)
<0.114 (1.33)0249 (1.37)175 (1.35)
<123 (1.29)1 (1.38)436 (1.27)363 (1.27)
<1057 (1.18)5 (1.21)935 (1.18)934 (1.15)
Resupply (2 and 6 h Shoot K(Na) and K(0), n = 12)
<0.001126 (1.31)64 (1.33)
<0.01200 (1.25)122 (1.24)
<0.1297 (1.18)222 (1.21)
<1499 (1.16)507 (1.13)
<101020 (1.06)1217 (1.08)
  • Cumulative numbers of differentially expressed genes according to FDRs ranging from <0.001% to <10%. FDRs were calculated by dividing E-values by the position of the gene in the RP list obtained from three (for K+ starvation) or six (for resupply) replicate experiments. E-values were assigned by comparing the RP of each gene to the RP calculated from 10,000 random permutations of the original dataset (see “Materials and Methods” for details). Numbers in brackets indicate the minimal FC at each level of significance.