Proteomic analysis of Arthrobacter
EMSL Project ID
9794a
Abstract
This project proposes to use advanced proteomic analysis available at EMSL to provide information for the annotation of a bacterial genome. The genome sequence of Arthrobacter FB24, a chromium and radiation resistant bacterium, is being sequenced by the Joint Genome Institute. The genus Arthrobacter is broadly distributed in surface and subsurface soil habitats, and appears to be well adapted to survive in nutrient-poor and arid environments. For example, many isolates of this genus have been made from contaminated soils on the Hanford reservation (J. Fredrickson, personal communication). As an aid to the annotation of the genome, we propose to analyze the proteome of this bacterium via FTICR mass spectrometry to provide physical evidence for the existence of proteins predicted from the raw genome sequence. This approach has rarely been used as a first step in genome annotation, and may provide a useful paradigm for the analysis and annotation of other bacterial genomes for which relatively little other information is available.The Konopka lab will provide bacterial samples grown under a variety of conditions, in order to maximize the number of expressed proteins. These conditions will include (a) several different growth rates (via growth in chemostats), (b) exposure to stress conditions (chromium and radiation), and (c) the transition from growth to non-growth conditions. We will apply techniques and technologies that maximize the ability to detect both low abundance and high abundance proteins.
Konopka will provide some samples in the fall of 2004, in order to obtain preliminary data for refined analysis. More intensive work will take place from May - November, 2005, when Konopka will be present at PNNL while on sabbatical leave from Purdue University.
Project Details
Project type
Exploratory Research
Start Date
2004-11-22
End Date
2007-03-20
Status
Closed
Released Data Link
Team
Principal Investigator
Related Publications
Henne KL, CN Nakatsu, DK Thompson, and A Konopka. 2009. "High-Level Chromate Resistance in Arthrobacter sp. strain FB24 Requires Previously Uncharacterized Accessory Genes." BMC Microbiology 9:199-213. doi:10.1186/1471-2180-9-199