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Table 2 Real-time PCR to verify expression pattern of differentially expressed genes from the microarray experiment (for a list of these genes primer sequence, see Additional file 2 : Table S2)

From: Transcriptome profiling confirmed correlations between symptoms and transcriptional changes in RDV infected rice and revealed nucleolus as a possible target of RDV manipulation

GB.accession Fold change (Ex/Mock) ± SD p-valueB p-valueA Description
Microarray qRT-PCR
AK069685 5.4983 ± 1.581 6.6246 ± 3.6546 0 0.0204 Piwi domain containing protein, expressed
9631.m02900 2.6141 ± 0.7001 2.9988 ± 0.530 0 0.0316 Small nuclear ribonucleoprotein G, putative, expressed
AF443600 6.2009 ± 2.7810 6.5142 ± 2.1441 0.0042 0.0045 Glucan endo-1,3-beta-glucosidase GII precursor, putative, expressed
AF247164 6.1081 ± 6.8408 6.7585 ± 11.4824 0.0236 0.0235 Alpha-expansin 4 precursor, putative, expressed
AK099501 2.1007 ± 0.9030 2.4711 ± 0.5329 0.0261 0.005 Ribonucleoprotein, putative, expressed
CR282531 1.7015 ± 0.2375 1.4174 ± 0.5866 0.0303 0.0694 60S acidic ribosomal protein P2A, putative, expressed
AK103199 3.2899 ± 2.5965 4.0319 ± 3.4615 0.0302 0.0057 Transposon protein, putative, CACTA, En/Spm sub-class, expressed
AK062099 1.6257 ± 0.3806 1.7461 ± 0.3890 0.0308 0.0601 Ribosomal L28e protein family protein, expressed
AK059679 1.8421 ± 0.303 1.9076 ± 0.9539 0.0308 0.0892 60S ribosomal protein L38, putative, expressed
AK067896 1.6171 ± 0.2825 1.3415 ± 0.6274 0.04342 0.1508 60S ribosomal protein L6, putative, expressed
AK120766 1.7459 ± 0.5397 2.1115 ± 0.8514 0.04342 0.0293 Piwi domain containing protein, expressed
D29724 1.529 ± 0.2032 1.51084 ± 0.2562 0.04342 0.0408 Peptide chain release factor 2, putative, expressed, 60S ribosomal protein L38, putative, expressed
AK063247 2.5979 ± 1.4057 2.0925 ± 2.0497 0.04342 0.0197 Auxin-induced protein TGSAUR12, putative, expressed
AK062943 1.5919 ± 0.0932 1.5679 ± 1.0226 0.0483 0.0986 40S ribosomal protein S15a, putative, expressed
AK071291 1.6782 ± 0.3353 1.5959 ± 0.6893 0.0483 0.0831 Fibrillarin-2, putative, expressed
AK061513 2.5152 ± 0.6761 2.8184 ± 1.9757 0.0588 0.0434 Nucleoid DNA-binding protein cnd41, putative, expressed
AK099754 1.7647 ± 0.2432 1.7471 ± 0.2758 0.0588 0.0487 Nucleolar protein NOP5, putative, expressed
U36565 4.8787 ± 2.0832 7.23E-06 Rice dwarf virus coat protein mRNA, complete cds
UBQ11* 0.1955  
  1. Notice: Ap-value form microarray experiment; Bp-value from qRT-PCR; *Rice UBQ11 was used as a control for qRT-PCR.