TY - JOUR
T1 - Insights into the physiology of Methylotenera mobilis as revealed by metagenome-based shotgun proteomic analysis
AU - Bosch, Gundula
AU - Wang, Tiansong
AU - Latypova, Ekaterina
AU - Kalyuzhnaya, Marina G.
AU - Hackett, Murray
AU - Chistoserdova, Ludmila
PY - 2009
Y1 - 2009
N2 - 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.
AB - 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.
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U2 - 10.1099/mic.0.024968-0
DO - 10.1099/mic.0.024968-0
M3 - Article
C2 - 19332812
AN - SCOPUS:65649099711
VL - 155
SP - 1103
EP - 1110
JO - Journal of General Microbiology
JF - Journal of General Microbiology
SN - 1350-0872
IS - 4
ER -