Table 3

Upregulated transcripts found in both wheat and rice under –P conditions
Transcript ID Source Tissue Length RPKM (0d) RPKM (10d) Fold change RAP transcripts Gene Gene annotation P1BS in 1-kb upstream region of rice gene
RFL_Contig1729 TriFLDB Root 756 1.14 389.75 340.97 Os03t0146800-01 IPS1 Non-protein coding transcript +
tplb0015j18 TriFLDB Shoot 1,571 3.88 100.42 25.87 Os02t0514500-01 GDPD Glycerophosphoryl diester phosphodiesterase family protein -
RFL_Contig1771 TriFLDB Root 391 6.30 135.25 21.46 Os01t0838350-01 IPS2 Conserved hypothetical protein +
RFL_Contig2948 TriFLDB Root 1,360 22.19 373.52 16.83 Os06t0603600-01 SPX1 SYG/PHO8/XPR1 (SPX) domain gene -
tplb0011c17 TriFLDB Shoot 1,685 2.29 37.19 16.22 Os08t0299400-01 MGD MGDG synthase type A -
tplb0011c17 TriFLDB Root 1,685 2.02 29.80 14.78 Os08t0299400-01 MGD MGDG synthase type A -
RFL_Contig1729 TriFLDB Shoot 756 8.71 114.37 13.13 Os03t0146800-01 IPS1 Non-protein coding transcript +
RFL_Contig1771 TriFLDB Shoot 391 1.81 20.83 11.51 Os01t0838350-01 IPS2 Non-protein coding transcript +
tplb0009k23 TriFLDB Root 1,609 6.46 53.39 8.26 Os02t0325600-01 - Similar to phosphate starvation response regulator-like protein +
tplb0015j18 TriFLDB Root 1,571 21.91 170.15 7.77 Os02t0514500-01 GDPD Glycerophosphoryl diester phosphodiesterase family protein -
tplb0009k23 TriFLDB Shoot 1,609 3.35 21.14 6.30 Os02t0325600-01 - Similar to phosphate starvation response regulator-like protein +
Contig.28393.5 Assembled Shoot 1,075 1.17 6.69 5.73 Os08t0433200-01 - Conserved hypothetical protein +
tplb0017d11 TriFLDB Root 2,344 2.12 10.98 5.18 Os04t0555300-01 - Similar to glycerol 3-phosphate permease +
Contig.28393.5 Assembled Root 1,075 1.00 4.64 4.64 Os08t0433200-01 - Conserved hypothetical protein +
RFL_Contig180 TriFLDB Root 929 151.92 649.17 4.27 Os07t0630400-01 OsRNS1 Ribonuclease T2 family protein +
tplb0002b13 TriFLDB Root 915 16.38 69.34 4.23 Os08t0434100-01 OsRNS3 S-like ribonuclease +
Contig.8101.10 Assembled Root 2,058 3.74 14.18 3.79 Os09t0321200-00 - Similar to carotenoid cleavage dioxygenase +
tplb0010d01 TriFLDB Shoot 1,435 2.20 8.28 3.76 Os08t0535700-00 - Similar to glycerophosphodiester phosphodiesterase +
Contig.9738.4 Assembled Root 2,060 7.56 27.93 3.70 Os06t0325200-00 Pht1;10 Major facilitator superfamily protein -
tplb0005p16 TriFLDB Root 2,900 25.71 91.49 3.56 Os10t0100500-01 - Serine/threonine protein kinase-related domain containing protein +
RFL_Contig2948 TriFLDB Shoot 1,360 22.46 71.55 3.19 Os06t0603600-01 SPX1 SYG/PHO8/XPR1 (SPX) domain gene -
Contig.7073.9 Assembled Root 2,151 10.97 32.96 3.01 Os12t0554500-00 - Lipase, class 3 family protein -
tplb0004l11 TriFLDB Root 1,241 86.40 210.59 2.44 Os04t0652700-01 - Similar to nuclease PA3 -
Contig.19551.3 Assembled Root 756 3.83 9.28 2.42 Os08t0478000-01 - Similar to mucin-2 -
RFL_Contig6043 TriFLDB Shoot 1,744 29.56 69.86 2.36 Os05t0475400-01 - Similar to alanine:glyoxylate aminotransferase-like protein -
Contig.7627.18 Assembled Root 1,951 14.40 29.37 2.04 Os06t0115600-01 - Similar to CYCLOPS -
Contig.1419.6 Assembled Root 845 12.66 24.57 1.94 Os09t0367700-01 - Similar to GST6 protein +
RFL_Contig5356 TriFLDB Shoot 2,134 62.44 117.43 1.88 Os01t0557500-01 - Cation/proton exchanger 1a -
RFL_Contig1089 TriFLDB Root 1,979 15.97 29.71 1.86 Os05t0387200-01 SQD1 Sulfite:UDP-glucose sulfotransferase -
RFL_Contig3773 TriFLDB Root 1,915 14.45 26.40 1.83 Os07t0100300-02 - Glycosyl transferase, group 1 domain containing protein +
Contig.5729.19 Assembled Root 2,057 16.32 29.61 1.81 Os05t0489900-01 - Calcium/calmodulin-dependent protein kinase -
tplb0005j01 TriFLDB Shoot 1,911 42.84 71.03 1.66 Os03t0760200-01 - Cytochrome P450 family protein +
RFL_Contig3516 TriFLDB Root 2,119 158.24 256.48 1.62 Os05t0137400-01 - Similar to aspartic protease precursor +
RFL_Contig1089 TriFLDB Shoot 1,979 103.87 166.66 1.60 Os05t0387200-01 SQD1 Sulfite:UDP-glucose sulfotransferase -
RFL_Contig3516 TriFLDB Shoot 2,119 123.51 190.78 1.54 Os05t0137400-01 - Similar to aspartic protease precursor +
RFL_Contig3173 TriFLDB Root 2,096 93.45 143.24 1.53 Os03t0826600-01 - Similar to phospholipase +
tplb0011n16 TriFLDB Root 3,325 506.03 752.10 1.49 Os09t0315700-01 - Phosphoenolpyruvate carboxylase family protein -
RFL_Contig3773 TriFLDB Shoot 1,915 119.10 170.78 1.43 Os07t0100300-02 - Glycosyl transferase, group 1 domain containing protein +
tplb0011n16 TriFLDB Shoot 3,325 122.46 174.90 1.43 Os09t0315700-01 - Phosphoenolpyruvate carboxylase family protein -
tplb0006o12 TriFLDB Root 1,917 13.84 19.77 1.43 Os01t0109300-01 - Similar to predicted protein +
tplb0002m14 TriFLDB Root 1,205 156.19 221.81 1.42 Os01t0897200-04 OsRNS2 Ribonuclease 2 precursor +
RFL_Contig3173 TriFLDB Shoot 2,096 93.61 132.02 1.41 Os03t0826600-01 - Similar to phospholipase +
RFL_Contig2349 TriFLDB Root 3,073 304.03 425.90 1.40 Os02t0809800-01 PHO1:H2 Root-to-shoot inorganic phosphate (Pi) transfer -
RFL_Contig3543 TriFLDB Shoot 1,308 187.76 259.91 1.38 Os03t0238600-01 PAP Similar to purple acid phosphatase -
RFL_Contig5356 TriFLDB Root 2,134 20.40 28.11 1.38 Os01t0557500-01 - Cation/proton exchanger 1a -
tplb0013h02 TriFLDB Root 2,851 62.68 83.60 1.33 Os10t0500600-01 - Zinc finger, C2H2-like domain containing protein +
RFL_Contig5307 TriFLDB Root 1,219 43.36 57.80 1.33 Os01t0128200-01 - Similar to nuclease I -
tplb0004m05 TriFLDB Root 942 42.30 55.89 1.32 Os02t0704900-02 - Similar to inorganic pyrophosphatase-like protein +
tplb0011n23 TriFLDB Root 2,648 105.24 137.60 1.31 Os01t0621900-02 - Conserved hypothetical protein -
tplb0008m02 TriFLDB Root 1,657 149.03 190.13 1.28 Os08t0557600-01 - Similar to monodehydroascorbate reductase -
RFL_Contig3543 TriFLDB Root 1,308 597.17 755.77 1.27 Os03t0238600-01 PAP Similar to purple acid phosphatase -
RFL_Contig6043 TriFLDB Root 1,744 272.35 333.30 1.22 Os05t0475400-01 - Similar to alanine:glyoxylate aminotransferase-like protein -
tplb0001a12 TriFLDB Shoot 1,678 23.44 28.13 1.20 Os06t0204400-01 - Similar to aminoalcoholphosphotransferase -
tplb0010b10 TriFLDB Root 1,838 295.07 343.13 1.16 Os09t0553200-01 UGPase UDP-glucose pyrophosphorylase -
tplb0017h23 TriFLDB Shoot 1,988 97.39 112.72 1.16 Os09t0478300-01 - Conserved hypothetical protein -
RFL_Contig3605 TriFLDB Root 2,532 72.22 83.43 1.16 Os09t0379900-02 - - -
tplb0004a13 TriFLDB Shoot 2,730 389.19 449.07 1.15 Os06t0178900-01 - Vacuolar H + −pyrophosphatase -
tplb0010b10 TriFLDB Shoot 1,838 338.48 380.45 1.12 Os09t0553200-01 UGPase UDP-glucose pyrophosphorylase -
tplb0006p01 TriFLDB Root 1,330 1139.67 1233.89 1.08 Os08t0126300-02 - Similar to glyceraldehyde-3-phosphate dehydrogenase -
tplb0013o11 TriFLDB Root 2,022 197.87 210.17 1.06 Os07t0622200-01 - Similar to M-160-u1_1 -

Oono et al.

Oono et al. BMC Genomics 2013 14:77   doi:10.1186/1471-2164-14-77

Open Data