title: RNA-seq transcriptome analysis of a Pseudomonas strain with diversified catalytic properties growth under different culture medium.
abstract: Biocatalysis is an emerging strategy for the production of enantio-pure organic molecules. However, lacking of commercially available enzymes restricts the widespread application of biocatalysis. In this study, we report a Pseudomonas strain which exhibited versatile oxidation activity to synthesize chiral sulfoxides when growing under M9-toluene medium and reduction activity to synthesize chiral alcohols when on Luria-Bertani (LB) medium, respectively. Further comparative transcriptome analysis on samples from these two cultural conditions has identified 1038 differentially expressed genes (DEG). Gene Ontology (GO) enrichment and KEGG pathways analysis demonstrate significant changes in protein synthesis, energy metabolism, and biosynthesis of metabolites when cells cultured under different conditions. We have identified eight candidate enzymes from this bacterial which may have the potential to be used for synthesis of chiral alcohol and sulfoxide chemicals. This work provides insights into the mechanism of diversity in catalytic properties of this Pseudomonas strain growth with different cultural conditions, as well as candidate enzymes for further biocatalysis of enantiomerically pure molecules and pharmaceuticals.
authors.affiliation: Department of Biochemistry, Zunyi Medical University, Zunyi, 563003, China.
authors.forename: Jia-Wei
authors.initials: JW
authors.lastname: Yang
authors.affiliation: School of Pharmacy, Zunyi Medical University, Zunyi, 563000, China.
authors.forename: Dai-Jun
authors.initials: DJ
authors.lastname: Zheng
authors.affiliation: Department of Biochemistry, Zunyi Medical University, Zunyi, 563003, China.
authors.forename: Bao-Dong
authors.initials: BD
authors.lastname: Cui
authors.affiliation: School of Pharmacy, Zunyi Medical University, Zunyi, 563000, China.
authors.forename: Min
authors.initials: M
authors.lastname: Yang
authors.affiliation: School of Pharmacy, Zunyi Medical University, Zunyi, 563000, China.
authors.forename: Yong-Zheng
authors.initials: YZ
authors.lastname: Chen
mesh_terms: D000438:Alcohols / Q000378:metabolism; D055162:Biocatalysis; D003470:Culture Media / Q000737:chemistry*; D004734:Energy Metabolism / Q000235:genetics; D020869:Gene Expression Profiling; D015964:Gene Expression Regulation, Bacterial; D016680:Genome, Bacterial / Q000235:genetics; D010084:Oxidation-Reduction; D014176:Protein Biosynthesis / Q000235:genetics; D011549:Pseudomonas / Q000201:enzymology* / Q000235:genetics / Q000378:metabolism*; D012313:RNA / Q000032:analysis; D013454:Sulfoxides / Q000378:metabolism; D059467:Transcriptome / Q000235:genetics*
chemical_list: D000438:Alcohols; D003470:Culture Media; D013454:Sulfoxides; D012313:RNA
keywords: Biocatalysis; Pseudomonas; Transcriptome; differentially expressed gene