Table 3.
Expression analysis of genes encoding ABC transporters during growth on barley β-glucan, starch, cellobiose and maltose
| LTa | Protein productb | Fold changec | Linear RPKM Valuesd | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| B/YE | C/YE | G/YE | S/YE | M/YE | B | C | G | S | M | YE | ||
| 0472 | BPD transport system IMP | NS | 23.1 | 18.3 | NS | 2.7* | 1.7 | 27.7 | 22 | 1.1 | 3.3 | 1.2 |
| 0473 | BPD transport system IMP | NS | 20.8 | 18.9 | NS | 3 | 1.8 | 31 | 28.2 | 1.9 | 4.4 | 1.5 |
| 0474 | extracellular SBP | 0.7 | 7.4 | 9.6 | NS | NS | 6.5 | 71.7 | 92.8 | 8.6 | 13.4 | 9.7 |
| 0728 | extracellular SBP | 0.3 | 7.2 | 0.2 | NS | 0.2 | 7.1 | 173.8 | 4 | 19 | 6 | 24 |
| 0729 | BPD transport system IMP | 0.4 | 8.6 | 0.5 | NS | 0.4 | 6.2 | 119.1 | 6.5 | 12.8 | 5.1 | 13.9 |
| 0730 | BPD transport system IMP | 0.5 | 8.8 | 0.5 | NS | 0.5 | 7.3 | 134.5 | 8.2 | 16.4 | 7.7 | 15.2 |
| 0771 | extracellular SBP | 0.1 | 0 | 0 | 86.4 | 24.1 | 3.9 | 2.4 | 2.6 | 5524 | 1543.1 | 64 |
| 0772 | BPD transport system IMP | 0.1 | 0.1 | 0.1 | 94.3 | 34.7 | 1.1 | 0.8 | 0.9 | 1174 | 432.6 | 12.5 |
| 0773 | BPD transport system IMP | 0.1 | 0.1 | 0.1 | 134.8 | 58.3 | 1.3 | 0.8 | 0.8 | 1390 | 600.5 | 10.3 |
| 0949 | BPD transport system IMP | 1451.2 | NS | NS | NS | NS | 3602 | 2.1 | 2 | 2.2 | 3.1 | 2.5 |
| 0950 | BPD transport system IMP | 1498.5 | 1.7 | NS | NS | NS | 5522 | 6.4 | 3.5 | 4.8 | 4.9 | 3.7 |
| 0953 | extracellular SBP | 1220.8 | 2 | NS | NS | 0.6 | 5381 | 8.8 | 3.5 | 5 | 2.6 | 4.4 |
| 1320 | extracellular SBP | 0.2* | 0.6 | 0.1 | 0.4* | 0.1 | 4.2 | 11.5 | 1.4 | 6.9 | 1.8 | 18.6 |
| 1321 | BPD transport system IMP | 0.1 | NS | 0.1 | 0.6* | 0.1 | 0.7 | 4.8 | 0.5 | 3 | 0.5 | 5 |
| 1322 | BPD transport system IMP | 15.1 | NS | 0.3 | 0.6 | 0.4 | 111.3 | 8.1 | 2.6 | 4.6 | 3.2 | 7.4 |
| 3245 | periplasmic binding protein | 3.5 | 2.6 | 2.3 | 2.3 | 10.9 | 158.4 | 119.1 | 103.9 | 107 | 500.4 | 45.7 |
| 3597 | extracellular SBP | 15 | 0.5 | 0.6* | 2.4* | NS | 19.9 | 0.7 | 0.8 | 3.2 | 1.1 | 1.3 |
| 5314 | BPD transport system IMP | 39.9 | 0.4 | 0.2 | 0.5 | 0.3 | 426.6 | 4.4 | 2.1 | 5.8 | 2.7 | 10.7 |
| 5315 | BPD transport system IMP | 42.1 | 0.4 | 0.2 | 0.4* | 0.2 | 379.7 | 3.2 | 1.4 | 3.7 | 1.4 | 9 |
| 5316 | extracellular SBP | 31.1 | 0.2 | 0.1 | 0.3 | 0.1 | 797.5 | 5.4 | 1.9 | 7.5 | 1.6 | 25.7 |
| 5589 | extracellular SBP | 0.5 | 0.5 | 0.5* | NS | 9.8 | 2.2 | 2.1 | 2.3 | 3.3 | 42.9 | 4.4 |
| 5590 | BPD transport system IMP | NS | NS | NS | NS | 10.9 | 1.1 | 1.2 | 1.8 | 1.4 | 15.3 | 1.4 |
| 5591 | BPD transport system IMP | 0.5 | NS | NS | NS | 14.9 | 0.4 | 0.6 | 0.9 | 1.1 | 13.7 | 0.9 |
| 5596 | BPD transport system IMP | 3.1 | 44.8 | 0.6 | 0.6 | 0.4 | 19.7 | 281.7 | 3.5 | 3.5 | 2.4 | 6.3 |
| 5597 | BPD transport system IMP | 3.3 | 52.2 | 0.5* | NS | 0.2 | 14.1 | 219.5 | 2.1 | 2.2 | 1 | 4.2 |
| 5598 | extracellular SBP | 4.4 | 54.5 | 0.1 | 0.2* | 0.1 | 40.3 | 494.9 | 1.1 | 2.3 | 0.9 | 9.1 |
| 5960 | BPD transport system IMP | 15.3 | 154.6 | 15.2 | NS | 0.5 | 269.7 | 2721 | 267.6 | 22.6 | 8.8 | 17.6 |
| 5961 | BPD transport system IMP | 16 | 145.5 | 12.7 | NS | 0.5 | 227.1 | 2062 | 179.8 | 22.6 | 7.8 | 14.2 |
| 5962 | extracellular SBP | 18.1 | 118.5 | 12.2 | NS | 0.3 | 620.6 | 4070 | 419.6 | 33.1 | 9.4 | 34.3 |
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
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: B, barley β-glucan; C, cellobiose; G, glucose; S, starch; M, maltose; 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