title: Insights into the physiology of Methylotenera mobilis as revealed by metagenome-based shotgun proteomic analysis.
abstract: While the shotgun proteomics approach is gaining momentum in understanding microbial physiology, it remains limited by the paucity of high-quality genomic data, especially when it comes to poorly characterized newly identified phyla. At the same time, large-scale metagenomic sequencing projects produce datasets representing genomes of a variety of environmental microbes, although with lower sequence coverage and sequence quality. In this work we tested the utility of a metagenomic dataset enriched in sequences of environmental strains of Methylotenera mobilis, to assess the protein profile of a laboratory-cultivated strain, M. mobilis JLW8, as a proof of principle. We demonstrate that a large portion of the proteome predicted from the metagenomic sequence (approx. 20 %) could be identified with high confidence (three or more peptide sequences), thus gaining insights into the physiology of this bacterium, which represents a new genus within the family Methylophilaceae.
authors.affiliation: Department of Chemical Engineering, University of Washington, Seattle, WA 98195, USA.
authors.forename: Gundula
authors.initials: G
authors.lastname: Bosch
authors.affiliation: Department of Microbiology, University of Washington, Seattle, WA 98195, USA.
authors.forename: Tiansong
authors.initials: T
authors.lastname: Wang
authors.affiliation: Department of Chemical Engineering, University of Washington, Seattle, WA 98195, USA.
authors.forename: Ekaterina
authors.initials: E
authors.lastname: Latypova
authors.affiliation: Department of Microbiology, University of Washington, Seattle, WA 98195, USA.
authors.forename: Marina G
authors.initials: MG
authors.lastname: Kalyuzhnaya
authors.affiliation: Department of Chemical Engineering, University of Washington, Seattle, WA 98195, USA.
authors.forename: Murray
authors.initials: M
authors.lastname: Hackett
authors.affiliation: Department of Chemical Engineering, University of Washington, Seattle, WA 98195, USA.
authors.forename: Ludmila
authors.initials: L
authors.lastname: Chistoserdova