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TranscriptomicsEffect of FadR overexpression in an engineered fatty acid overproducer
Transcriptome analysis of strains LT-ΔfadE (control) and FRT-ΔfadE (FadR overexpressor) after 12h of fatty acid production. The strains used are described in detail in Zhang F, M Ouellet, TS Batth, CJ Petzold, A Mukhopadhyay and JD Keasling. Enhancing fatty acid production by the expression of the r...
ORGANISM(S): Escherichia coli 
2012-01-28 | E-GEOD-35392 | biostudies-arrayexpress
TranscriptomicsComparison of Labeling Methods for gene expression analysis on the NimbleGen platform
Comparison of ds-cDNA, Indirect and Direct Random Labeling Methods for gene expression analysis on the NimbleGen platform. Expression profiles from artemisinic acid-producing S. cerevisiae strain EPY330 and non-producing strain EPY338 are compared for each labeling method tested. The labeling metho...
ORGANISM(S): Saccharomyces cerevisiae 
2010-05-19 | E-GEOD-15816 | biostudies-arrayexpress
GenomicsAcinetobacter venetianus RAG-1 = CIP 110063
Transcriptomic analysis of the marine oil-degrading bacterium Acinetobacter venetianus RAG-1 reveals genes important in dodecane uptake and utilization.
PRJNA312904 | ENA
TranscriptomicsMapping the DNA-binding response regulators of Desulfovibrio vulgaris Hildenborough
D. vulgaris is a model sulfate reducing bacteria whose genome encodes a high number of two component systems, including 29 DNA-binding response regulators (RRs) whose functions are unknown, but are very likley to be important to the environmental lifestyle of the organism. We determined the gene tar...
ORGANISM(S): Desulfovibrio vulgaris 
2011-05-31 | E-GEOD-25163 | biostudies-arrayexpress
TranscriptomicsExpression analysis of E. coli DH1 after exposure with {C2mim]Cl
Whole genome gene expression level changes in E. coli DH1 exposed to 150 mM [C2mim]Cl in mid exponential growth, and compared to a non-exposed strain. Total RNA was isolated from three biological replicates for each condition: 150 mM [C2mim]Cl exposed at OD(600nm) 0.6, after 30 and 60 min, no exposu...
ORGANISM(S): Escherichia coli DH1 
2014-05-01 | E-GEOD-51731 | biostudies-arrayexpress
TranscriptomicsStudy of 1,4 Butanediol response in Escherichia coli DH1
Escherichia coli DH1 cultures with treated with 6% 1,4 Butanediol for 1 hour and compared with untreated cultures The data from this experiment was used to identify a candidate for further study as described in Szmidt et al 2013 Utilizing a highly responsive gene, yhjX, in E. coli based production ...
ORGANISM(S): Escherichia coli DH1 
2014-03-04 | E-GEOD-55496 | biostudies-arrayexpress
TranscriptomicsCell wide response to low oxygen exposure in Desulfovibrio vulgaris Hildenborough
We investigated the effects of low level oxygen on Desulfovibrio vulgaris Hildenborough using microarrays. Keywords: time course, stress response Comparison of cells treated with 1000 ppm oxygen to untreated cells at 60,120,240 min.
ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough 
2010-06-10 | E-GEOD-7816 | biostudies-arrayexpress
TranscriptomicsDynamic transcriptional response of Microcoleus vaginatus to hydration and dehydration in a desert biological soil crust
Biological soil crusts (BSCs) are cyanobacteria-dominated microbial communities that cover extensive portions of the world’s arid and semi-arid deserts. The infrequent periods of hydration are often too short to allow for dormancy strategies based on sporulation; consequently, survival is based on t...
ORGANISM(S): Microcoleus vaginatus 
2012-10-30 | E-GEOD-40188 | biostudies-arrayexpress
TranscriptomicsTranscriptomic analysis of mature Desulfovibrio vulgaris biofilm
Background. Desulfovibrio vulgaris Hildenborough is a sulfate-reducing bacterium (SRB) that is intensively studied in the context of metal corrosion and heavy-metal bioremediation, and SRB populations are commonly observed in pipe and subsurface environments as surface-associated populations. In o...
ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough 
2012-03-31 | E-GEOD-35883 | biostudies-arrayexpress
TranscriptomicsFunctional Genomic Study of Exogenous n-Butanol Stress in Escherichia coli
n-Butanol has been proposed as an alternative biofuel to ethanol, and both Escherichia coli and Saccharomyces cerevisiae have been engineered to produce it. Unfortunately, n-butanol is more toxic than ethanol to these organisms. To understand the basis for its toxicity, cell wide studies were cond...
ORGANISM(S): Escherichia coli 
2010-05-16 | E-GEOD-16973 | biostudies-arrayexpress
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