E-GEOD-52495 - Genome and transcriptome of Clostridium phytofermentans catalyst for the direct conversion of plant feedstocks to fuels

Status
Released on 20 November 2013, last updated on 3 June 2014
Organism
Clostridium phytofermentans
Samples (18)
Array (1)
Protocols (6)
Description
Clostridium phytofermentans was recently isolated from forest soil and is distinguished by its capacity to directly ferment plant cell wall polysaccharides into ethanol as the primary product, suggesting that it possesses unusual catabolic pathways. The objective of the present study was to understand the molecular mechanisms of biomass conversion to ethanol in a single organism, Clostridium phytofermentans, by analyzing its complete genome and transcriptome during growth on plant carbohydrates. The saccharolytic versatility of C. phytofermentans is reflected in a diversity of genes encoding ATP-binding cassette sugar transporters and glycoside hydrolases, many of which may have been acquired through horizontal gene transfer. These genes are frequently organized as operons that may be controlled individually by the many transcriptional regulators identified in the genome. Preferential ethanol production may be due to high levels of expression of multiple ethanol dehydrogenases and additional pathways maximizing ethanol yield. The genome also encodes three different proteinaceous bacterial microcompartments with the capacity to compartmentalize pathways that divert fermentation intermediates to various products. These characteristics make C. phytofermentans an attractive resource for improving the efficiency and speed of biomass conversion to biofuels. C. phytofermentans was cultured anaerobically on different carbohydrates sources to determine carbohydrates specific expression patterns. The data in this series consists two independent RNA preparations from replicate cultures.
Experiment type
transcription profiling by array 
Contacts
Jeffrey L Blanchard <jeffb@bio.umass.edu>, Elsa Petit, James Hayes, Jeffrey Blanchard
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-52495.idf.txt
Sample and data relationshipE-GEOD-52495.sdrf.txt
Raw data (1)E-GEOD-52495.raw.1.zip
Processed data (1)E-GEOD-52495.processed.1.zip
Array designA-GEOD-7481.adf.txt
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