Table 3. Expression values of gene clusters putatively involved in trehalose biosynthesis and polyphosphate degradation in P. putida LS46 under mcl-PHA permissive vs non-permissive conditions in WG cultures.
| WG | ||||||
|---|---|---|---|---|---|---|
| (Sta vs Exp) | ||||||
| Locus-tag | Gene symbol | Gene product | Expression abundance a | Differential expression b | ||
| (PPUTLS46_) | ||||||
| RNA | Protein | Rnet | Pnet | |||
| 012110 | glgA | glycogen synthase | - c | - | - | - |
| 012115 | treY | Malto-oligosyltrehalose trehalohydrolase | - | - | - | - |
| 012120 | malQ | 4-alpha-glucanotransferase | 9.94 | 19.10 | -0.07 | 2.06 |
| 012125 | treZ | maltooligosyl trehalose synthase | - | - | - | - |
| 012130 | * | protein of unknown function | 8.98 | 20.04 | -0.07 | 0.06 |
| 012135 | glgX | glycogen debranching protein | - | - | - | - |
| 012140 | hypothetical protein | 9.07 | - | -0.44 | - | |
| 012145 | outer membrane autotransporter | 7.34 | - | 0.99 | - | |
| 012150 | glgB* | glycogen branching enzyme | 11.34 | 19.80 | -0.42 | 1.21 |
| 012155 | treS | trehalose synthase | 9.95 | 21.02 | -0.59 | 2.76 |
| 012160 | alpha amylase family protein | 10.19 | 20.09 | -0.9 | 1.28 | |
| 002907 | treS | trehalose synthase (Pseudomonas stutzeri type) | 7.66 | - | 0.11 | - |
| 005431 | glgP | glycogen phosphorylase | 11.14 | 22.36 | -0.47 | 2.45 |
a Log2 expression abundance of gene products (mRNA and Protein) of P. putida LS46 grown under mid-log phase of waste glycerol culture (non-mcl-PHA synthesis condition). Values were averaged from two biological replicates
b Differential expression value of gene products under the specific comparing conditions: Sta, Stationary phase; Exp, Exponential phase; Significantly up-regulated proteins are indicated in bold
c a “-” symbol means not detected mRNA and/or protein expression under mid-log phase of WG culture and stationary culture of WG culture
* symbol indicates proteins (if detected) with S/N (signal to noise) ratio less than 2.8, and thus having FDR greater than 10%.