GEO DataSets

(Submitter supplied) Analysis of gene expression of mid log phase cultures of Escherichia coli Ancestor strain, and high temperature evolved lines 42-1, 42-2 and 42-3. Keywords: other

Organism:

Escherichia coli

Type:

Expression profiling by array

Dataset:

GDS1848

Platform:

GPL189

12 Samples

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Analysis of 3 strains derived by growing the ancestral Bc251 strain for 2,000 generations at 41.5 degrees C. Cells grown to mid log-phase at 41.5 degrees C. Results provide insight into the role of heat-inducible genes in the genetic adaptation to long-term temperature stress.

Organism:

Escherichia coli

Type:

Expression profiling by array, count, 4 strain sets

Platform:

GPL189

Series:

GSE533

12 Samples

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(Submitter supplied) The transcriptome of Escherichia coli K-12 has been widely studied over a variety of conditions for the past decade while such studies involving E. coli O157:H7, its pathogenic cousin, are just now being conducted. To better understand the impact of heat shock on E. coli O157:H7, global transcript levels of strain EDL933 cells shifted from 37°C to 50°C for 15 min were compared to cells left at 37°C using microarrays. more...

Organism:

Escherichia coli; Escherichia coli O157:H7 str. EDL933

Type:

Expression profiling by array

Platform:

GPL6272

12 Samples

Download data: TXT

(Submitter supplied) A study evaluating the effect of stress resistance selection of Drosophila melanogaster. Abstract Here, we report a detailed analysis of changes in gene expression in Drosophila melanogaster selected for multiple eological relevant environmental stress resistance traits. We analyzed females from three biological replicates from seven selection regimes and one control regime using whole genome gene expression arrays. more...

Organism:

Drosophila melanogaster

Type:

Expression profiling by array

Dataset:

GDS2830

Platform:

GPL72

24 Samples

Download data: CEL

Analysis of several lines each selected for resistance to a different environmental stress factor. Results provide insight into the molecular and genetic mechanisms that promote adaptation to environmental stresses.

Organism:

Drosophila melanogaster

Type:

Expression profiling by array, transformed count, 8 strain sets

Platform:

GPL72

Series:

GSE6558

24 Samples

Download data: CEL

(Submitter supplied) Transcriptome analyses of the Escherichia coli cells acquired in the thermal adaptive evolution (Kishimoto et al, 2010, PLoS Genet) were performed. The ancestor strain (Anc) and the evolved strains (41B, 43B, 45L and 37L) were analyzed. The cells exponetially growing at the regular (37ºC) and/or evolutionary (41~45ºC) temperatures and in response to heat shock at 45ºC were collected for microarray analyses. more...

Organism:

Escherichia coli

Type:

Expression profiling by genome tiling array

Platform:

GPL13336

40 Samples

Download data: CEL, TXT

(Submitter supplied) Heat-responsive and time-resolved changes in transcriptome of E. coli BL21(DE3) Experimentally mapped transcriptome structure of Escherichia coli BL21(DE3) by hybridizing total RNA (including RNA species <200 nt) to genome-wide high-density tiling arrays (60 mer probes tiled every 10 nt).

Organism:

Escherichia coli BL21(DE3)

Type:

Expression profiling by genome tiling array

Platform:

GPL22919

9 Samples

Download data: TXT

(Submitter supplied) Microbes exhibit short and long term responses when exposed to challenging environmental conditions. To what extent these responses are correlated, what their evolutionary potential is and how they translate to cross-stress fitness is still unclear. In this study, we comprehensively characterized the response of Escherichia coli populations to four abiotic stresses (n-butanol, osmotic, acidic, and oxidative) and their combinations by performing genome-scale transcriptional analysis and growth profiling. more...

Organism:

Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15010

40 Samples

Download data: FPKM_TRACKING

(Submitter supplied) A genome reduced E. coli strain MDS42 and its parent strain MG1655 were applied for the comparative transcriptome analysis. Genome-wide transcriptional changes due to genome reduction and heat shock were comprehensively evaluated.

Organism:

Escherichia coli

Type:

Expression profiling by genome tiling array

Platform:

GPL13336

20 Samples

Download data: CEL, TXT

(Submitter supplied) In this study we use nimblegen high-density arrays to examine gene expression regulation in a common-garden experiment varying thermal environments. We report genome-wide patterns of gene expression in two heat tolerant southern and two heat-sensitive northern clones of Daphnia pulex exposed to either optimal (18°C) or substressful (28°C) temperatures.

Organism:

Daphnia pulex

Type:

Expression profiling by array

Platform:

GPL11278

36 Samples

Download data: PAIR, TXT

(Submitter supplied) Laboratory adaptive evolution experiments were conducted using serial passage of E. coli in M9 minimal medium supplemented with either 2 g/L of lactate for 60 days or 2 g/L of glycerol for 44 days. 7 parallel evolution strains were generated for growth on lactate and 7 parallel evolution strains were generated for growth on glycerol. Affymetrix arrays were used to study the time-course change in gene expression from unevolved E. more...

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL199

96 Samples

Download data: CEL

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Escherichia coli str. K-12 substr. MG1655; Escherichia coli K-12

Type:

Expression profiling by array; Genome variation profiling by array

Platform:

GPL8872

45 Samples

Download data: GPR

(Submitter supplied) Microbial populations founded by a single clone and propagated under resource limitation can become polymorphic. We sought to understand how stable polymorphism arose in an Escherichia coli population that evolved for 765 generations under continuous glucose limitation. Apart from a 29 kb deletion in the dominant clone, no large-scale genomic changes distinguish evolved clones from their common ancestor. more...

Organism:

Escherichia coli K-12; Escherichia coli str. K-12 substr. MG1655

Type:

Genome variation profiling by array

Platform:

GPL8872

4 Samples

Download data: GPR

(Submitter supplied) Microbial populations founded by a single clone and propagated under resource limitation can become polymorphic. We sought to understand how stable polymorphism arose in an Escherichia coli population that evolved for 765 generations under continuous glucose limitation. Apart from a 29 kb deletion in the dominant clone, no large-scale genomic changes distinguish evolved clones from their common ancestor. more...

Organism:

Escherichia coli K-12; Escherichia coli str. K-12 substr. MG1655

Type:

Expression profiling by array

Platform:

GPL8872

41 Samples

Download data: GPR

(Submitter supplied) A genome reduced E. coli strain MDS42ΔgalK::Ptet-gfp-kan were applied for the comparative transcriptome analysis. Genome-wide transcriptional changes under high osmotic prresure, high temperature condition and starvation were evaluated.

Organism:

Escherichia coli

Type:

Expression profiling by genome tiling array

Platform:

GPL13336

30 Samples

Download data: CEL, TXT

(Submitter supplied) We used microarrays to study the evolution of gene expression in two bacterial ecotypes that coexisted for more than 35000 generations of experimental evolution in an extremely simple environment

Organism:

Escherichia coli; Escherichia coli B str. REL606

Type:

Expression profiling by array

Platform:

GPL3154

39 Samples

Download data: CEL