Table 1.
Genes differentially expressed in bv1-1301 and bv1-1302 relative to B73, with putative function annotation (values in FPKM)
| Function | Gene IDa | Putative function annotation | B73 | Bv1-1302 | bv1-1301 | bv1-1302 | Module membership; Score in moduleb |
|---|---|---|---|---|---|---|---|
| Actin polymerization | GRMZM2G118786 | Actin-related protein 2/3 complex subunit 3; uncharacterized | 0.90 | 1.31 | 0.00 | 0.00 | |
| Cellular component | GRMZM2G180659 | LHT1; lysine histidine transporter | 2.27 | 2.83 | 36.45 | 27.36 | Zm_mod07;0.82 |
| Hormones biosynthesis | GRMZM2G099467 | Gibberellin 20 oxidase 2; uncharacterized | 3.28 | 1.81 | 81.31 | 43.81 | Zm_mod07;0.70 |
| GRMZM2G072529 | ACC oxidase | 0.00 | 0.00 | 2.28 | 1.78 | ||
| Phenylpropanoid biosynthesis | GRMZM2G118345 | Phenylalanine ammonia-lyase | 2.62 | 3.34 | 21.66 | 16.10 | Zm_mod07;0.71 |
| GRMZM2G063917 | Phenylalanine ammonia-lyase | 0.00 | 0.00 | 8.59 | 2.83 | Zm_mod05;0.62 | |
| Metabolic process | GRMZM2G103273 | β-Galactosidase 5 | 3.39 | 5.94 | 0.00 | 0.00 | |
| GRMZM2G049021 | Isochorismatase family protein rutB | 12.61 | 0.00 | 42.65 | 39.69 | ||
| GRMZM2G129189 | Endochitinase PR4 putative uncharacterized protein | 0.00 | 0.00 | 2.82 | 1.93 | Zm_mod07;0.59 | |
| Signalling | GRMZM2G127789 | Glutathione S-transferase GST 29 | 0.00 | 0.00 | 4.16 | 2.81 | |
| Transcription factor | GRMZM2G169149 | WRKY62-superfamily of transcription factors having WRKY | 0.00 | 0.00 | 10.87 | 3.91 | |
| Transport | GRMZM2G153920 | Sorbitol transporter; uncharacterized | 0.00 | 0.00 | 1.15 | 0.98 | Zm_mod04;-0.49 |
| Transposon | GRMZM2G021020 | Transposable element | 22.24 | 22.90 | 0.00 | 0.00 | |
| GRMZM2G008283 | Transposable element | 15.17 | 33.16 | 0.0 | 0.0 | ||
| GRMZM2G020508 | Transposable element | 4.44 | 4.11 | 12.96 | 13.87 | ||
| GRMZM2G306371 | Transposable element | 2.53 | 5.26 | 0.0 | 0.0 |
a Although 42 genes were differentially expressed between bv1-1301 and bv1-1302 mutants relative to B73 and were not differentially expressed between Bv1-1302 and B73, 16 had functional annotations.
b Module membership refers to the co-expression module in which the gene is classified. The score refers to the correlation of the gene's expression level with the module’s eigengene. Gene module memberships and scores are from a transcriptome analysis of diverse maize tissues (Downs et al., 2013).