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Table 1 Fold change values of soybean genes affected by R. solani AG1-IA infection and involved in primary metabolism

From: An integrated RNAseq-1H NMR metabolomics approach to understand soybean primary metabolism regulation in response to Rhizoctonia foliar blight disease

Pathway Gene ID Gene annotationa RNAseq Fold Changeb qRT-PCR Fold Changec (P value)
    (P value) 12 h 24 h
Starch metabolism GLYMA08G45210 Alpha-glucan phosphorylase (AGP) 0.305 (0.0196) 0.793 (0.3489) 0.574 (0.0216)
GLYMA04G01950 Alpha-amylase (AMY) 5.898 (0.0052) 1.059 (0.6037) 2.190 (<0.0001)
GLYMA15G10480 Beta-amylase (BAMY) 2.800 (0.0200) 1.523 (0.0854) 1.509 (0.0249)
Carbohydrate metabolism GLYMA05G04290 Beta-fructofuranosidase (BFF) or invertase 39.717 (<0.0001) 0.909 (0.3517) 1.763 (0.0196)
GLYMA12G05780 Beta-glucosidase (BGLUC) INFd (0.0319) 0.317 (0.0164) INF (<0.0001)
TCA cycle GLYMA19G01200 Formate dehydrogenase (FDH) 7.092 (0.0020) 1.080 (0.6075) 1.453 (0.0212)
GLYMA17G13730 Malate synthase (MLS) 10.718 (<0.0001) 1.249 (0.5463) 2.145 (0.0094)
GLYMA01G23790 Phosphenolpyruvate carboxykinase 1 (PEPC) INF (0.0058) INF (0.0487) INF (<0.0001)
Amino acid metabolism GLYMA03G04990 Alanine-glyoxylate transaminase (AGT) 10.792 (0.0201) 1.164 (0.7345) 2.592 (0.0003)
GLYMA02G39320 Asparagine synthetase (ASN) INF (0.0038) 2.178 (0.0403) 2.159 (0.0277)
GLYMA01G24530 Delta 1-pyrroline-5-carboxylate synthase 2 (DPSC2) INF (<0.0001) 4.450 (0.0424) 3.486 (0.0003)
GLYMA03G12240 Glutamate-5-kinase (G5K) 25.089 (0.0084) 1.289 (0.9217) 3.806 (0.0001)
GLYMA19G36620 Phenylalanine ammonia lyase 1 (PAL1) 6.144 (0.0095) 1.362 (0.1645) 2.588 (<0.0001)
Glutathione metabolism GLYMA10G33650 Glutathione-S-transferase (GST) INF (0.0200) 1.578 (0.3678) 8.812 (<0.0001)
  1. aGene annotations based on the SoyBase database
  2. bRNAseq fold change values based on pairwaise comparisons using the negative binomial test and an FDR correction <0.1 using Benjamini-Hochberg multiple corrections [87]
  3. cqRT-PCR fold changes based on [81] efficiencies and P values based on pairwise comparisons using Student’s t test comparisons
  4. dINF represents transcripts that were detected in infected samples, and not detected (below the detection threshold) in control samples
  5. Transcript changes were deemed statistically and biologically significant if P < 0.1 for RNAseq or P < 0.05 and fold changes were >1.5 or <−1.5