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 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). Cells were grown to OD600=5.0 (exponential phase) in PPM medium at 28℃. Three independent experiments were performed at each time.
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. Cells were grown to OD600=5.0-6.0 (late exponential phase) in LB medium at 28℃ and 37℃, respectively. Three independent experiments were performed at each time.
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.
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. P. aeruginosa M18 and its gacA mutant were grown to OD600=5.0-5.5 (early stationary phase) in KMB medium at 28M-bM-^DM-^C. Three independent experiments were performed at each time.
Project description:Transcriptomic consequence of the mutation in the response regulator gene gacA of the two-component regulatory system GacS/GacA in the rhizosphere biocontrol strain Pseudomonas aeruginosa M18
Project description:To further understand the gene expression characteristics of Pseudomonas aeruginosa PAO1, we have applied whole genome microarray expression profiling as a discovery platform to specify the temperature dependent expression of PAO1 genome at soil and human body temperature. We selected 28°C as temperature representative of the soil niche 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 [11]. The comparison analysis of the M18 genome expressional profiles at 28°C and 37°C indicated a total of 596 genes expressed in a temperature dependent manner over two fold.
Project description:Pseudomonas aeruginosa is a common bacteria leading to exacerbations of chronic obstructive pulmonary disease (COPD) patients while this bacteria can be easily eradicated by the immune systems of healthy individuals. Human airway organoids derived from healthy individuals and COPD patients were infected with pseudomonas aeruginosa. This project aims (1) to understand the differences in gene expressions in healthy and COPD airway organoids during stable condition, without infection and (2) to investigate differential pathogenic mechanism (i.e. antimicrobial defense) of pseudomonoas aeruginosa infection in healthy and COPD populations. Three healthy donors and three COPD patients were included in this study and samples were collected with and without pseudomonas aeruginosa infection.
Project description:To further determine the origin of the increased virulence of Pseudomonas aeruginosa PA14 compared to Pseudomonas aeruginosa PAO1, we report a transcriptomic approach through RNA sequencing. Next-generation sequencing (NGS) has revolutioned sistems-based analsis of transcriptomic pathways. The goals of this study are to compare the transcriptomic profile of all 5263 orthologous genes of these nearly two strains of Pseudomonas aeruginosa.
