Integrated genome-based studies of Shewanella ecophysiology

Technical Report · Tue Feb 14 00:00:00 EST 2012

DOI:https://doi.org/10.2172/1034753· OSTI ID:1034753

Segrè, Daniel ^[1]; Beg, Qasim ^[1]

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1. Boston Univ., MA (United States)

This project was a component of the Shewanella Federation and, as such, contributed to the overall goal of applying the genomic tools to better understand eco-physiology and speciation of respiratory-versatile members of Shewanella genus. Our role at Boston University was to perform bioreactor and high throughput gene expression microarrays, and combine dynamic flux balance modeling with experimentally obtained transcriptional and gene expression datasets from different growth conditions. In the first part of project, we designed the S. oneidensis microarray probes for Affymetrix Inc. (based in California), then we identified the pathways of carbon utilization in the metal-reducing marine bacterium Shewanella oneidensis MR-1, using our newly designed high-density oligonucleotide Affymetrix microarray on Shewanella cells grown with various carbon sources.

• Research Organization: Boston Univ., MA (United States)
• Sponsoring Organization: USDOE Office of Science (SC); USDOE Office of Science (SC), Biological and Environmental Research (BER)
• DOE Contract Number: FG02-07ER64388
• OSTI ID: 1034753
• Report Number(s): DOE-ER--64388-F
• Country of Publication: United States
• Language: English

Related Subjects

09 BIOMASS FUELS
54 ENVIRONMENTAL SCIENCES
59 BASIC BIOLOGICAL SCIENCES
60 APPLIED LIFE SCIENCES
ALGORITHMS
BIOREACTORS
Bioenergy
Bioremediation
CARBON
CARBON SOURCES
DETECTION
GENES
GLYCOGEN
Gene expression
Genome-scale mathematical models
LACTATES
METABOLITES
Metabolic Networks
NITROGEN
NUTRIENTS
OLIGONUCLEOTIDES
OXYGEN
PIPELINES
PROBES
RESPIRATION
STIMULI
STORAGE
Shewanella
Systems Biology
TOPOLOGY
TRANSCRIPTION
TRANSCRIPTION FACTORS