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TranscriptomicsCarbon nutrition of pathogenic and commensal E. coli
Transcriptome profiling of E. coli MG1655, E. coli EDL933, E. coli ECOR26, and E. coli Nissle 1917 grown on mouse cecal mucus as carbon source The carbon sources that support growth of pathogenic E. coli O157:H7 in the mammalian intestine have not previously been investigated. In vivo, pathogenic E...
ORGANISM(S): Escherichia coli 
2008-04-25 | E-GEOD-11254 | biostudies-arrayexpress
TranscriptomicsListeria monocytogenes EGD and EGD-e
Transcriptional profile after growth in MM (minimal medium (Premaratne et al. 2001) supplemented with 50 mM Glucose. Note: strain "EGD" has not been deposited at ATCC/NCTC. It is a derivative of the original Murray strain (Murray et al. 1926), obtained from S.H.E. Kaufmann. Strain "E...
ORGANISM(S): Listeria monocytogenes 
2008-11-30 | E-GEOD-12146 | biostudies-arrayexpress
TranscriptomicsMetabolism of four α-glycosidic linkage-containing oligosaccharides by Bifidobacterium breve UCC2003
Members of the genus Bifidobacterium are common inhabitants of the gastrointestinal tract of humans and other mammals, where they ferment many diet-derived carbohydrates that cannot be digested by their host. To extend our understanding of bifidobacterial carbohydrate utilisation, we investigated th...
ORGANISM(S): Bifidobacterium breve 
2013-08-16 | E-GEOD-47448 | biostudies-arrayexpress
TranscriptomicsMetabolism of a plant derived galactose-containing polysaccharide by Bifidobacterium breve UCC2003
In this study, we describe the functional characterisation of the B. breve UCC2003 gal locus, which is dedicated to the utilisation of galactan, a plant-derived polysaccharide. Using a combination of molecular approaches we conclude that the galA gene of B. breve UCC2003 encodes a beta-1,4-endogalac...
ORGANISM(S): Bifidobacterium breve UCC2003 
2012-05-16 | E-GEOD-21865 | biostudies-arrayexpress
TranscriptomicsTranscriptional pattern of E. coli BW25113 and its ptsA, glpK and dhaKLM isogenic mutants growing on DHA (dihydroxyacetone).
Dihydroxyacetone (DHA) is an attractive molecule produced in a wide range of industries . DHA is found among all the kingdoms as an intermediate of various metabolic pathways and can be used as a carbon source by many organisms. The bacterium Escherichia coli is able to grow on DHA as the sole carbo...
ORGANISM(S): Escherichia coli K-12 
2019-06-03 | E-MTAB-7666 | biostudies-arrayexpress
TranscriptomicsFarnesyl Diphosphate (FPP) Toxicity in E. coli, M9 medium
This experiment studied the effect of FPP accumulation on E. coli. E. coli cells transformed with pMBIS (the S. cerevisiae mevalonate pathway enzymes converting mevalonate to FPP) and fed mevalonate produce large amounts of FPP, which causes toxicity when it accumulates. When coupled with an activ...
ORGANISM(S): Escherichia coli 
2011-07-07 | E-GEOD-30403 | biostudies-arrayexpress
TranscriptomicsTranscriptomic profiles of six strains of Lactococcus lactis in ultrafiltration-cheese model
The intra sub-species diversity of six strains of Lactococcus lactis subsp. lactis was investigated at the genomic level and in terms of phenotypic and transcriptomic profiles in UF-cheese model. Six strains were isolated from various sources, but all are exhibiting a dairy phenotype. Our results sh...
ORGANISM(S): Lactococcus lactis 
2012-09-07 | E-GEOD-23987 | biostudies-arrayexpress
MetabolomicsMetabolic consequences of cobalamin scarcity in diatoms as revealed through metabolomics (Thalassiosira pseudonana study)

Diatoms perform about 20% of photosynthesis on earth, play a crucial role in forming the base of the marine food web, and sequester anthropogenic carbon into the deep ocean through the biological pump. In some areas of the ocean, diatom growth is limited by the organic micronutrient cobalamin (vi...

2019-06-04 | MTBLS703 | MetaboLights
TranscriptomicsMicroarray of E. faecalis strain VE14089 and codY deletion strain -VE18073
Cells were grown in Brain Heart Infusion broth to an OD of 0.5, and RNA was extracted.
ORGANISM(S): Enterococcus faecalis 
2011-06-30 | E-MEXP-3068 | biostudies-arrayexpress
TranscriptomicsTranscriptional profile of B. theta and E. rectale growing in the cecum of mice fed different diets
The adult human gut microbial community is typically dominated by two bacterial phyla (divisions), the Firmicutes and the Bacteroidetes. Little is known about the factors that govern the interactions between their members. Here we examine the niches of representatives of both phyla in vivo. Finishe...
ORGANISM(S): Eubacterium rectale 
2010-05-22 | E-GEOD-14709 | biostudies-arrayexpress
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