Project description:To further understand the gene expression characteristics of originating biocontrol strain Pseudomonas aeruginosa M18, we have applied whole genome microarray expression profiling as a discovery platform to to specify the PCA-dependent expression of M18 genome. We constructed a series of PCA-producing mutant strains (high PCA: M18MSU1; low PCA: M18MS; and no PCA: M18MSP1P2). The comparison analysis of the M18 mutants genome expressional profiles indicated that the expression of PCA in both M18MSU1 and M18MS alters the expression of a total of 545 different genes; however, the higher level of PCA in M18MSU1 altered more genes (489) as compared to M18MS (129).
Project description:To further understand the gene expression characteristics of originating biocontrol strain Pseudomonas aeruginosa M18, we have applied whole genome microarray expression profiling as a discovery platform to to specify the temperature dependent expression of M18 genome at rhizosphere and human body temperature. We selected 28°C as temperature representative of the rhizosphere niches and 37°C for human body. The results from the temperature dependent transcriptome analysis are consistent to our previous published data that the phzM, ptsP and lasI genes expression is upregulated at 37°C. The comparison analysis of the M18 genome expressional profiles at 28°C and 37°C indicated a total of 605 gene expressed in a temperature dependent manner over about two fold at 28°C compared that at 37°C, covering 10.6% genes in M18 whole genome.
Project description:To identify the transcriptional targets of the DNA-binding response regulator HnoC (SO_2540), mRNA transcript levels in Shewanella oneidensis were measured using whole genome microarray analysis. Transcript levels were compared between WT Shewanella oneidensis and a hnoC deletion strain.
Project description:To investigate the influence of GacA on the genome-wide transcription of the rhizobacterium P. aeruginosa M18, DNA microarray experiments were carried out to compare the transcriptional profile of M18 with that of the gacA mutant grown to the early stationary phase (OD600 = 5.0 ~ 5.5) in KMB media. When compared with the M18 parental strain, the transcriptomic profile of gacA mutant revealed the significantly differential expression (increased or decreased by at least 2-fold as well as p-value < 0.05) of 839 genes, which represent approximately 15% of all 5696 annotated genes in the M18 genome. Of these 839 genes, 472 were downregulated and 367 genes were upregulated by the gacA mutation.
