Table 4. Differentially expressed transcripts involved in sugar and fiber accumulation between the low and high fiber genotypes.
| Function classification | TSA accession | Length (bp) | Description | All tissues (1) | Bottom tissues (3) | Top tissues (2) | |||
|---|---|---|---|---|---|---|---|---|---|
| log2FC | padj | log2FC | padj | log2FC | padj | ||||
| Carbohydrate metabolism | |||||||||
| CHO metabolism | GFHJ01020794.1 | 5097 | Similar to callose synthase; glucan synthase-like 12 (GSL12) | -3.031 | 4.55E-02 | - | - | -3.281 | 4.51E-02 |
| CHO metabolism | GFHJ01023689.1 | 5963 | Alpha-amylase precursor (EC 3.2.1.1) (Isozyme 1B) | - | - | - | - | -3.223 | 4.90E-02 |
| CHO metabolism | GFHJ01037300.1 | 4596 | Glucose-1-phosphate adenylyltransferase large subunit 1 | 1.05 | 3.79E-02 | - | - | - | - |
| CHO metabolism | GFHJ01012375.1 | 1318 | Granule-bound starch synthase 1b, chloroplast precursor (EC 2.4.1.242) | 2.525 | 1.21E-02 | 2.676 | 2.45E-02 | - | - |
| CHO metabolism | GFHJ01015836.1 | 2545 | Sucrose synthase 1 (EC 2.4.1.13) (Sucrose-UDP glucosyltransferase 1) | - | - | 4.507 | 3.77E-02 | - | - |
| Photosynthesis | |||||||||
| Photosynthesis | GFHJ01093755.1 | 727 | Encodes a one helix protein | - | - | - | - | -3.567 | 8.16E-03 |
| Photosynthesis | GFHJ01031690.1 | 1385 | Fructose-bisphosphate aldolase (ALDP) (EC 4.1.2.13) | - | - | -4.497 | 2.47E-02 | - | - |
| Photosynthesis | GFHJ01079929.1 | 562 | Proteasome maturation factor UMP1 | 3.575 | 4.31E-03 | - | - | - | - |
| Photosynthesis | GFHJ01014544.1 | 1813 | Serine hydroxymethyltransferase, mitochondrial precursor (EC 2.1.2.1) | 1.028 | 5.19E-03 | - | - | - | - |
| Photosynthesis | GFHJ01011598.1 | 1658 | Phosphoglycerate kinase, cytosolic (EC 2.7.2.3) | - | - | 2.533 | 2.29E-02 | - | - |
| Cell-wall metabolism | |||||||||
| Hemicellulose synthesis | GFHJ01016359.1 | 1924 | UDP-arabinose 4-epimerase 2 (EC 5.1.3.5) | - | - | -4.606 | 2.29E-02 | - | - |
| Glycolysis | GFHJ01067367.1 | 835 | 2-phosphoglycerate dehydratase 1 (EC 4.2.1.11) | - | - | -4.331 | 3.77E-02 | - | - |
| Cellulose synthesis | GFHJ01021631.1 | 1495 | Encodes a cellulose synthase isomer, related to CESA6 | 4.515 | 1.57E-06 | - | - | 4.462 | 3.29E-05 |
| Glycolysis | GFHJ01029222.1 | 1644 | Chloroplast/plastid localized GAPDH isoforms | - | - | 1.874 | 4.19E-02 | - | - |
| Lignin pathway | |||||||||
| Lignin biosynthesis | GFHJ01052729.1 | 1079 | Caffeoyl-CoA O-methyltransferase 5 CCoAOMT | - | - | -4.294 | 4.32E-02 | - | - |
| Lignin biosynthesis | GFHJ01085183.1 | 589 | Cinnamyl alcohol dehydrogenase (CAD) | 2.294 | 3.60E-05 | - | - | 2.48 | 4.29E-04 |
| Lignin biosynthesis | GFHJ01052435.1 | 1358 | O-methyltransferase ZRP4 (EC 2.1.1.104) (COMT) | - | - | 6.619 | 2.47E-06 | - | - |
| Dirigent proteins | |||||||||
| GFHJ01087645.1 | 573 | Dirigent protein | 3.665 | 3.24E-03 | 8.254 | 5.90E-11 | - | - | |
| GFHJ01086725.1 | 741 | Dirigent protein | 5.454 | 1.96E-09 | 7.791 | 5.48E-10 | - | - | |
| GFHJ01076697.1 | 754 | Dirigent protein | 3.431 | 9.29E-03 | 4.389 | 3.66E-02 | - | - | |
| GFHJ01071693.1 | 872 | Dirigent protein | 2.885 | 1.31E-02 | 3.235 | 4.19E-02 | - | - | |
| GFHJ01078847.1 | 931 | Dirigent protein | 3.223 | 2.27E-02 | 5.211 | 4.92E-03 | - | - | |
| GFHJ01086396.1 | 1013 | Dirigent protein | 3.368 | 1.21E-02 | 5.412 | 2.97E-03 | - | - | |
Negative log2FC values indicate that up-regulated in the low fiber group, while positive log2FC values indicate up-regulated in the high fiber group. padj: adjusted p-value.
(1) Between all pooled samples from low fiber genotypes and high fiber genotypes.
(2) Between top tissues of low and high fiber genotypes.
(3) Between bottom tissues of low and high fiber genotypes. Grey colour indicates the transcripts that were only detected in the pooled sample comparison or only in one comparison.