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Table 3 Expression analysis of genes encoding ABC transporters during growth on barley β-glucan, starch, cellobiose and maltose

From: Genomic and transcriptomic analysis of carbohydrate utilization by Paenibacillus sp. JDR-2: systems for bioprocessing plant polysaccharides

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
  1. aLT, locus tag annotated as Pjdr2_#### abbreviated to consist only of the numeric portion, ####
  2. bSBP, solute binding protein; IMP, inner membrane protein; BPD, binding protein dependent
  3. 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)
  4. dRPKM values are defined as Reads Per Kilobase per Million reads sequenced