Comparative transcriptomics and proteomics of p-hydroxybenzoate producing Pseudomonas putida S12: novel responses and implications for strain improvement

• Published in: Applied microbiology and biotechnology Vol. 87; no. 2; pp. 679 - 690
• Main Authors: Verhoef, Suzanne, Ballerstedt, Hendrik, Volkers, Rita J. M, de Winde, Johannes H, Ruijssenaars, Harald J
• Format: Journal Article
• Language: English
• Published: Berlin/Heidelberg Berlin/Heidelberg : Springer-Verlag 01.06.2010; Springer-Verlag; Springer; Springer Nature B.V
• Subjects: Ammonia; Bacteria; Bacterial Proteins - genetics; Bacterial Proteins - metabolism; Biological and medical sciences; Biomedical and Life Sciences; Biosynthesis; Biotechnology; Chemical synthesis; E coli; Fundamental and applied biological sciences. Psychology; Gene Expression Profiling; Gene Expression Regulation, Bacterial; Genomics; Genomics, Transcriptomics, Proteomics; Glucose; Glycerol; Life Sciences; Metabolic engineering; Metabolism; Microbial Genetics and Genomics; Microbiology; Mutagenesis; p-hydroxybenzoate; Parabens - metabolism; Phenols; Plasmids; Proteomics; Pseudomonas putida; Pseudomonas putida - genetics; Pseudomonas putida - metabolism; Pseudomonas putida S12; Studies; Transcriptomics; Metabolic engineering; hydroxybenzoate; S12; Transcriptomics; Proteomics; Pseudomonadales; Pseudomonas putida S12; Genetic improvement; Transcriptome; p-hydroxybenzoate; Bacteria; Pseudomonadaceae; Pseudomonas putida; Comparative study
• ISSN: 0175-7598; 1432-0614
• DOI: 10.1007/s00253-010-2626-z

A transcriptomics and proteomics approach was employed to study the expression changes associated with p-hydroxybenzoate production by the engineered Pseudomonas putida strain S12palB1. To establish p-hydroxybenzoate production, phenylalanine-tyrosine ammonia lyase (pal/tal) was introduced to connect the tyrosine biosynthetic and p-coumarate degradation pathways. In agreement with the efficient p-hydroxybenzoate production, the tyrosine biosynthetic and p-coumarate catabolic pathways were upregulated. Also many transporters were differentially expressed, one of which—a previously uncharacterized multidrug efflux transporter with locus tags PP1271-PP1273—was found to be associated with p-hydroxybenzoate export. In addition to tyrosine biosynthesis, also tyrosine degradative pathways were upregulated. Eliminating the most prominent of these resulted in a 22% p-hydroxybenzoate yield improvement. Remarkably, the upregulation of genes contributing to p-hydroxybenzoate formation was much higher in glucose than in glycerol-cultured cells.