Table 4.
Regulation of genes involved in monosaccharide transport and introduction into metabolic pathways
| LTa | Protein productb | Fold changec | Linear RPKM Valuesd | |||||
|---|---|---|---|---|---|---|---|---|
| G/YE | X/YE | A/YE | G | X | A | YE | ||
| Monosaccharide metabolism | ||||||||
| 0170 | glucokinase | NS | NS | NS | 119.2 | 140.7 | 131.2 | 128.5 |
| 2502 | arabinose isomerase | 0.5 | 0.6 | 23.8 | 81.6 | 96.3 | 4117.9 | 173.0 |
| 4209 | ribulose kinase | 0.6 | NS | 17.1 | 13.0 | 20.9 | 369.6 | 21.7 |
| 5159 | xylose isomerase | 0.4 | 99.9 | 0.5 | 21.3 | 6046.1 | 30.9 | 60.5 |
| 5158 | xylulose kinase | 0.4 | 62.9 | 19.0 | 16.9 | 2951.2 | 19.0 | 46.9 |
| Monosaccharide transporters | ||||||||
| 0472 | BPD transport system IMP | 18.3 | 6.4 | 16.8 | 22 | 7.7 | 20.2 | 1.2 |
| 0473 | BPD transport system IMP | 18.9 | 6.0 | 13.9 | 28.2 | 9.0 | 20.8 | 1.5 |
| 0474 | extracellular SBP | 9.6 | 3.1 | 5.6 | 92.8 | 30.4 | 54.2 | 9.7 |
| 0661 | extracellular SBP | 0.4* | NS | 1917.4 | 1.4 | 4.8 | 7460.5 | 3.9 |
| 0662 | NBD | NS | NS | 1267.6 | 1.0 | 2.1 | 3374.4 | 2.7 |
| 0663 | BPD transport system IMP | 0.2 | 0.6 | 1301.2 | 0.8 | 2.0 | 4343.5 | 3.3 |
| 0977 | extracellular SBP | 16.8 | 190.6 | 8.3 | 154.2 | 1747.9 | 76.2 | 9.2 |
| 0978 | NBD | 15.2 | 102.1 | 5.9 | 80.2 | 538.0 | 30.9 | 5.3 |
| 0979 | BPD transport system IMP | 17.6 | 111.9 | 6.4 | 105.9 | 671.5 | 38.7 | 6.0 |
| 1340 | symporter | 39.1 | 162.0 | 14.0 | 120.5 | 499.9 | 43.4 | 3.1 |
| 2400 | extracellular SBP | 4.8 | 3.7 | 3.8 | 244.9 | 188.0 | 193.4 | 51.1 |
| 2401 | NBD | 4.3 | 1.9 | 2.3 | 93.8 | 41.5 | 49.4 | 21.9 |
| 2402 | BPD transport system IMP | 4.8 | 3.3 | 3.5 | 116.1 | 79.2 | 84.0 | 24.0 |
aLT, locus tag annotated as Pjdr2_#### abbreviated to consist only of the numeric portion, ####
bSBP, solute binding protein; IMP, inner membrane protein; BPD, binding protein dependent; NBD, nucleotide binding domain
cTranscript levels of candidate genes that were expressed 2-fold greater (underlined) and those that were expressed 4-fold greater (bold) than the yeast extract without carbohydrate are indicated. The growth substrates are shown as follows: G, glucose; X, xylose; A, arabinose; YE, yeast extract. Significance of fold change data is judged by having a p-value no more than 0.01. Data with p-values between 0.01 and 0.05 are denoted with an asterisk, and those with p-values greater than 0.05 are designated as not significant (NS)
dRPKM values are defined as Reads Per Kilobase per Million reads sequenced