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Table 3 Differentially expressed genes encoding proteins shown to have a role in biotic/abiotic stress resistance, when knocked-out (KO)/over-expressed (Ox)

From: Antagonistic, overlapping and distinct responses to biotic stress in rice (Oryza sativa) and interactions with abiotic stress

Probe Set ID Bacteria Parasite Fungus Virus Abiotic MSU gene identifier Name Phenotype Reference
1 2 3 4 5 6 7 8 9 10 11 12 13
Os.11773.1.s1_at 2.1    2.8 2.3 9.2 7.1 2.0   2.4 2.4 2.3 −2.0 LOC_Os05g27730.1 OsWRKY53 Ox - enhanced resistance [38]
Os.12032.1.s1_at 2.0   2.9 8.3 8.5 80.7 25.5 2.2   3.4 2.8 4.8   LOC_Os02g08440.1 OsWRKY71 Ox - enhanced resistance [23]
Os.37565.2.s1_at 2.8    11.3 2.9 6.5 4.7 2.2   1.3   8.3 −1.9 LOC_Os05g25770.1 OsWRKY45-1 Ox - increased susceptibility [10]
Os.48082.1.s1_at 1.6 6.1   15.3   25.8   12.0   2.2 9.2 2.2   LOC_Os09g25070.1 OsWRKY62 Ox - increased susceptibility [44]
Os.50015.1.s1_at 1.5 2.1 7.0 46.7 21.0 219.4 22.3 4.6   8.9 44.5 7.7 1.7 LOC_Os06g44010.1 OsWRKY28 Ox - enhanced resistance [21]
Os.2160.2.s1_x_at 1.4   1.6   2.1 1.6 −1.5    1.8 1.8   −2.5 LOC_Os01g54600.1 OsWRKY13 Ox - enhanced resistance [11]
Os.15708.1.s1_a_at 1.2       −3.4     2.2 1.7 −9.2 LOC_Os04g38720.1 OsNAC2 Ox- increased shoot branching [39]
Os.4385.1.s1_at 1.5   1.9   1.4 1.9 −1.7    11.1 8.7 2.2 1.7 LOC_Os11g08210.1 OsNAC5 Ox-increase stress tolerance [22]
Os.12199.1.s1_at 1.4    1.7 1.6 8.9     6.9 5.7 3.4 1.4 LOC_Os01g66120.1 OsNAC6 Ox-increase stress tolerance [22]
Os.26695.1.s1_at 1.6   2.0 2.7 3.4 55.6 4.0 3.0   7.0 5.3 4.9 5.9 LOC_Os03g60080.1 NAC9/SNAC1 Ox-increase stress tolerance [40]
Os.35020.1.s1_at 4.1 11.1 2.2 3.9 4.1 112.1     53.1 35.1 3.3   LOC_Os11g03300.1 NAC10 Ox-increase stress tolerance [20]
Os.25621.2.s1_at 10.0 3.9 3.4 10.7 8.1 65.1 15.5    9.5 6.0   4.6 LOC_Os12g16720.1 SL1 KO/KD - enhanced resistance [33]
Os.12372.2.s1_x_at −1.4   −2.4 −1.5 −2.1 −3.4 −1.8    −5.9 −3.4 −3.1   LOC_Os08g06280.3 OsLSD1 Ox - increased susceptibility [45]
Os.42024.1.s1_at   −1.7    1.6 −4.0 2.2    −2.0 −2.3 1.8 −15.2 LOC_Os01g56420.1 COPT1 Ox - increased susceptibility [46]
Os.40018.1.s1_at 2.0    6.1 2.1 36.5 54.5 2.6    4.0 1.9   LOC_Os05g45410.1 SPL7 KO/KD -increased susceptibility [34]
Os.12767.1.s1_a_at −1.5    −1.7   22.0 −2.3 −2.5   1.5 1.5   −2.3 LOC_Os07g34570.1 OsDR8 KO/KD -increased susceptibility [47]
Os.12501.1.s1_at 8.0     1.6 66.7 −2.1     6.0 −2.0 −4.5 LOC_Os01g55940.1 GH3-2 Activation - enhanced resistance [48]
Os.11798.1.s1_at 1.7   10.8     8.5    11.7 2.8 1.7 1.7 LOC_Os07g40290.1 OsGH3-8 Ox - enhanced resistance [49]
Os.2448.1.s1_at −2.7    −2.1 −2.2 2.5 −1.4    −1.6 −1.8   4.4 LOC_Os02g02840.1 OsRacB Ox - increased susceptibility [30]
Os.4684.1.s1_at 1.6     −1.8 4.5     −2.0 −2.3   1.4 LOC_Os01g49290.1 Rack1 Ox - enhanced resistance [50]
Os.10401.1.s1_s_at   14.5     46.2       −1.8   LOC_Os08g42350.1 xa13/8N3 KO/KD - enhanced resistance [51]
Os.5491.1.a1_s_at 2.4 2.4 −2.3    4.5 −1.5    1.2 1.6    LOC_Os12g29220.1 MtN3/saliva Expression - enhanced resistance [36]
Os.27244.1.a1_s_at −7.3   −4.9    −3.3     −1.4 1.2    LOC_Os04g32850.1 Pi21 KO/KD - enhanced resistance [52]
Os.1311.1.s1_at 2.9      4.0     −2.3 −1.6 −1.5   LOC_Os02g02410.1 BiP3 Ox - increased susceptibility [53]
Os.19321.1.s1_at 1.4     1.9 6.4 5.1 3.5    1.4 1.7 −1.8 LOC_Os03g60650.1 XB15 KO/KD - enhanced resistance [54]
Os.8901.1.s1_at 1.6    1.8 2.3 3.1 2.9      2.6   LOC_Os02g22130.1 OsGAP1 Ox - enhanced resistance [55]
Os.9338.1.s1_at 1.4      1.9     1.2 1.2    LOC_Os01g43540.1 OsSGT1 Ox - enhanced resistance [56]
Os.8353.1.s1_at   2.8      −1.9 −3.0   4.3 3.9 1.9 2.2 LOC_Os01g68770.1 OsSBP Ox - enhanced resistance [57]
Os.27112.1.s1_at 1.7    1.9 1.8 12.7     2.5 3.2   −5.1 LOC_Os01g09800.1 NH1 Ox - enhanced resistance [58]
Os.19086.2.s1_x_at −1.8     −1.4 1.5     1.3    1.7 LOC_Os01g68860.1 C3H12 KO/KD -increase susceptibility [37]
Osaffx.19417.2.s1_x_at   −1.1             LOC_Os11g47210.1 xa26 Ox - enhanced resistance [59]
Os.406.1.s1_a_at 1.7   2.2 1.8   19.7 9.0 2.7 2.6 2.9   3.2 −3.4 LOC_Os03g17700.1 BIMK1/OsMPK5 KO/KD - enhanced resistance [60]
Os.6126.1.s1_at   −1.6     3.8 3.6 3.2   1.4 3.2 1.9 2.1 LOC_Os04g41160.1 OsOxi1 (90%) Ox - enhanced resistance [61]
  1. The Affymetrix probeset ID, fold-change responses to: Bacterial infection; 1. Resistant (Xoo.), 2. Susceptible (Xoo.), 3. Susceptible (Xoc.) [16], Parasite infection [14]; 4. Resistant (S.hermonthica), 5. Susceptible (S.hermonthica), Fungus; 6. Susceptible (M. grisea) [13], 7. Susceptible (M.oryzae) [19], Virus; 8. Resistant (Rice stripe virus), 9. Susceptible (Rice stripe virus) – GSE11025, Abiotic stress [17]; 10. Drought, 11. Salt, 12. Cold, 13. Heat [18]. In addition, the locus identifier (MSU), gene name, phenotype and reference are also shown for each gene.