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Table 4 Regulation of genes involved in monosaccharide transport and introduction into metabolic pathways

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
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
  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; NBD, nucleotide binding domain
  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: 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)
  4. dRPKM values are defined as Reads Per Kilobase per Million reads sequenced