title: Label-free quantification reveals major proteomic changes in Pseudomonas putida F1 during the exponential growth phase.
abstract: The physiological adaptation to stationary growth by Pseudomonas putida F1, a model organism for the degradation of aromatic compounds, was investigated by proteome-wide label-free quantification.The data unveiled that entrance to the stationary phase did not involve an abrupt switch within the P. putida F1 proteome, but rather an ongoing adaptation that started already during the mid-exponential growth phase. The proteomic adaptations involved a clear increase in amino acid degradation capabilities and a loss of transcriptional as well as translational capacity. The final entrance to the stationary phase was accompanied by increased oxidative stress protection, although the stress and stationary sigma factor RpoS increased in abundance already during mid-exponential growth. The results show that it is important to consider significant sample variations when exponentially growing cultures are studied alone or compared across proteomic or transcriptomic literature. All MS data have been deposited in the ProteomeXchange with identifier PXD001219 (http://proteomecentral.proteomexchange.org/dataset/PXD001219).
authors.affiliation: Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
authors.forename: Florian-Alexander
authors.initials: FA
authors.lastname: Herbst
authors.affiliation: Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
authors.forename: Heidi Nolsøe
authors.initials: HN
authors.lastname: Danielsen
authors.affiliation: Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
authors.forename: Reinhard
authors.initials: R
authors.lastname: Wimmer
authors.affiliation: Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
authors.forename: Per Halkjaer
authors.initials: PH
authors.lastname: Nielsen
authors.affiliation: Center for Microbial Communities, Department of Chemistry and Bioscience, Aalborg University, Aalborg, Denmark.
authors.forename: Morten Simonsen
authors.initials: MS
authors.lastname: Dueholm
mesh_terms: D001426:Bacterial Proteins / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D016000:Cluster Analysis; D030562:Databases, Protein; D020543:Proteome / Q000032:analysis* / Q000737:chemistry / Q000378:metabolism; D040901:Proteomics / Q000379:methods*; D016958:Pseudomonas putida / Q000378:metabolism* / Q000502:physiology*
chemical_list: D001426:Bacterial Proteins; D020543:Proteome
keywords: Exponential phase; Growth adaptation; Microbial proteomics; Microbiology; Pseudomonas putida F1; Stationary phase