Lachnoclostridium phytofermentans
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PROVIDER: PRJNA229107 | ENA |
REPOSITORIES: ENA
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Project description:Pathways involved in plant decomposition in Clostridium phytofermentans
| PRJNA229108 | ENA
Project 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.
2013-11-20 | GSE52495 | GEO
Project description:Clostridium phytofermentans overview
| PRJNA35843 | ENA
Project 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.
2013-11-20 | E-GEOD-52495 | biostudies-arrayexpress
Project description:Clostridium phytofermentans ferments all major component of the plant cell wall to alcohols and is an emerging model organism for understanding the direct conversion of plant biomass into biofuels. Encoded in the genome of C. phytofermentans are three large genetic loci for the production of polyhedral microcompartments (PMCs) that may function as metabolic centers for the dissimilation of plant cell wall components into primary alcohols. We demonstrate that the PMC encoded by one of these loci acts in the fermentation of fucose and rhamnose to propanol and propionate. The PMC contains a propanediol dehydratase that is part of a new superfamily of enzymes that utilizes S-adenosylmethionine in place of adenosylcobalamin to catalyze radical reactions. Analysis of the C. phytofermentans genome sequence data indicated that the fucose and rhamnose pathways might converge at the point of the enzymes encoded by the PMC loci. When C. phytofermentans is grown on fucose, a 100-200 nm polyhedral body is apparent in electron micrographs, and ethanol and propanol are produced. Microarray experiments revealed that during growth on fucose, three fucose-related operons coding for (i) the PMC shell and metabolic proteins, (ii) cytoplasmic fucose dissimilatory enzymes, and (iii) an ABC transporter system become the dominant transcripts in the cell. Similarly when C. phytofermentans is grown on rhamnose, three rhamnose-related operons coding for (i) the PMC shell and metabolic proteins, (ii) cytoplasmic rhamnose dissimilatory enzymes, and (iii) an ABC transporter system become the dominant transcripts in the cell. Quite surprisingly, growth on fucose or rhamnose also led to the expression of a broader plant degradative transcriptional response. The expression of cellulose degrading enzymes on fucose and rhamnose is a fundamental difference between C. phytofermentans and its closest relatives, the human gut commensals.
2011-09-01 | GSE13194 | GEO
Project description:Polyhedral microcompartments in Clostridium phytofermentans
| PRJNA109487 | ENA
Project description:Clostridium phytofermentans ISDg, Cphy_SGX1100 genome sequencing
| PRJNA337242 | ENA
Project description:Clostridium phytofermentans ISDg, Cphy_SGX3100 genome sequencing
| PRJNA337244 | ENA
Project description:Clostridium phytofermentans ISDg, Cphy_SMB1100 genome sequencing
| PRJNA337245 | ENA
Project description:Clostridium phytofermentans ISDg, Cphy_SMB2100 genome sequencing
| PRJNA337246 | ENA