Similar studies for GEO DataSets (Select 200009178) - GEO DataSets

Links from GEO DataSets

Items: 20

Select item 2000091781.

Genome-wide transcriptional response of an Avian Pathogenic Escherichia coli (APEC) Pst Mutant

(Submitter supplied) Many reports show an association between the Pst system, the Pho regulon related genes and bacterial virulence. Our previous results showed that a functional Pst system is required for full virulence, resistance to serum, polymyxin B and acid shock. However, the interplay between the Pst system and virulence has an unknown molecular basis. To understand global APEC virulent strain responses to Pho regulon activation, we conducted transcriptome profiling experiments comparing the APEC chi7122 strain and its isogenic Pst mutant grown in rich phosphate medium using the Affymetrix GeneChip® E. more...

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL3154
8 Samples

Download data: CEL

Series

Accession:: GSE9178

ID:: 200009178

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000409062.

Genome-wide Analysis of the Pho Regulon in a pstCA mutant of Citrobacter rodentium

(Submitter supplied) to investigate global gene expression of C. rodentium strain ICC169 and its isogenic pstCA and phoB mutants when grown in phosphate-rich and phosphate-low medium

Organism:: Citrobacter rodentium

Type:: Expression profiling by array

Platform:: GPL7345
16 Samples

Download data: TXT

Series

Accession:: GSE40906

ID:: 200040906

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000218933.

Expression data from an Avian pathogenic Escherichia coli strain

(Submitter supplied) Avian pathogenic Escherichia coli strains frequently cause extra-intestinal infections and are responsible for significant economic losses in the poultry industry worldwide. APEC isolates are closely related to human extraintestinal pathogenic E.coli strains and may also act as pathogens for humans. In this work, three type VI secretion systems were deleted to analyze which pathogenicity characteristics would change in the mutants, compared to wild type strain (SEPT 362).

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL3154
4 Samples

Download data: CEL, TXT

Series

Accession:: GSE21893

ID:: 200021893

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000505294.

PhoB Activates Escherichia coli O157:H7 Virulence Factors in Response to Inorganic Phosphate Limitation

(Submitter supplied) In E. coli the phosphate homeostasis is regulated by the Pst system and the two-component system PhoB/R. Pathogens like E. coli O157:H7 are responsible for many outbreaks and can be found and survive in poor inorganic phosphate (Pi) environments. To understand global EHEC O157:H7 EDL933 strain responses to Pi-starvation, we compared the transcriptomes of EDL933 the WT strain grown in MOPS Pi rich medium and that grown in MOPS Pi poor medium, using the Affymetrix GeneChip® E. more...

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL3154
9 Samples

Download data: CEL

Series

Accession:: GSE50529

ID:: 200050529

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000115095.

comparison of virulence factors and expression of specific genes of UPEC and APEC in vivo and in vitro

(Submitter supplied) To gain further information of the correlation and pathogenisis of UPEC and APEC, the in vivo expression of 152 specific genes in both murine urinary tract infection (UTI) model and chicken challenge model were compared to that of UPEC U17 and APEC E058 grown statically to exponential phase in rich medium, respectively.

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL6870
4 Samples

Download data: LSR

Series

Accession:: GSE11509

ID:: 200011509

Select item 2000165656.

Transcriptome analysis of Escherichia coli K-12 and ada mutant

(Submitter supplied) Alkylation damage to DNA occurs when cells encounter alkylating agents in the environment or when active alkylators are generated by nitrosation of amino acids in metabolic pathways. To cope with DNA alkylation damage, cells have evolved genes that encode proteins with alkylation-specific DNA repair activities. It is notable that these repair systems are conserved from bacteria to humans. In Escherichia coli, cells exposed to a low concentration of an alkylating agent, such as N-methyl-N’-nitro-N-nitrosoguanidine (MNNG) or methyl methanesulfonate (MMS), show a remarkable increase in resistance to both the lethal and mutagenic effects of subsequent high-level challenge treatments with the same or other alkylating agents. more...

Organism:: Escherichia coli; Escherichia coli K-12

Type:: Expression profiling by array

Platform:: GPL5475
7 Samples

Download data: GPR

Series

Accession:: GSE16565

ID:: 200016565

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000154097.

Amino acid/Nucleotide perturbation in Escherichia coli

(Submitter supplied) Wild-type E. coli are prototrophic for all amino acid and nucleotides. These are synthesized by a network of interconnected metabolic pathways from a handful precursors molecules, which are regulated at the level of gene expression. It was hypothesized in this study, that since metabolic pathways are interconnected, transcriptional regulation should be shared across multiple pathways. To uncover these regulatory interactions, cells growing at steady state were perturbed by the addition of an end-metabolite (aa or nt), and were allowed to recover. more...

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

Type:: Expression profiling by array

Platform:: GPL3503
22 Samples

Download data: GPR

Series

Accession:: GSE15409

ID:: 200015409

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000183628.

E coli MG1655 biofilm and planktonic gene expression

(Submitter supplied) Bacteria growing as surface-adherent biofilms are better able to withstand chemical and physical stresses than their unattached, planktonic counterparts. Using transcriptional profiling and quantitative PCR, we observed a previously uncharacterized gene, yjfO, to be upregulated during Escherichia coli MG1655 biofilm growth in a chemostat on serine-limited defined medium. A yjfO mutant, developed through targeted insertion mutagenesis, and a yjfO-complemented strain, were obtained for further characterization. more...

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL189
4 Samples

Download data

Series

Accession:: GSE18362

ID:: 200018362

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000111839.

Identification of the Escherichia coli HU regulon

(Submitter supplied) The physiological role of the various nucleoid-associated proteins in bacteria and HU in particular has been addressed in a number of studies but remains so far not fully understood. In this work, a genome-wide microarray hybridization approach, combined with in vivo genetic experimentation, has been performed in order to compare and evaluate the effect of HUalpha, HUbeta and HUalphabeta on the transcription of the Escherichia coli K12 genes as a function of growth phase. more...

Organism:: Escherichia coli; Escherichia coli K-12

Type:: Expression profiling by array

Platform:: GPL199
26 Samples

Download data: CEL, EXP

Series

Accession:: GSE11183

ID:: 200011183

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20000732610.

Expression profiles during cell death programmed by a restriction-modification system in E. coli

(Submitter supplied) Genetically programmed deaths play important roles in the biology of unicellular prokaryotic cells. Some gene complexes force their maintenance on the host bacterial cells by killing cells that have lost them. This form of programmed death called post-segregational killing or genetic addiction is brought about by several Type II restriction-modification gene complexes, through restriction attack on the undermethylated chromosome, and underlie their behavior as selfish mobile elements. more...

Organism:: Escherichia coli; Escherichia coli K-12

Type:: Expression profiling by array

Platform:: GPL199
24 Samples

Download data: CEL

Series

Accession:: GSE7326

ID:: 200007326

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20004270211.

Stress response in the yajL (DJ-1 homolog) mutant of Escherichia coli

(Submitter supplied) YajL is the most closely related Escherichia coli homolog of Parkinsonism-associated protein DJ-1, a protein with a yet undefined function in the oxidative stress response. YajL protects cells against oxidative stress-induced protein aggregation and functions as a covalent chaperone for the thiol proteome, including FeS proteins. To clarify the cellular responses to YajL deficiency, transcriptional profiling of the yajL mutant was performed. more...

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL3154
4 Samples

Download data

Series

Accession:: GSE42702

ID:: 200042702

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20002863012.

The YbjN regulon in Escherichia coli

(Submitter supplied) YbjN, an enterobacteria-specific protein, is a multicopy suppressor of ts9 temperature sensitivity in Escherichia coli. Microarray study revealed that the expression level of ybjN was inversely correlated with the expression of flagellar, fimbrial and acid resistance genes. Over-expression of ybjN significantly down-regulated genes involved in the citric acid cycle, glycolysis, the glyoxylate shunt, oxidative phosphorylation, and amino acid and nucleotide metabolism. more...

Organism:: Escherichia coli str. K-12 substr. MG1655; Escherichia coli; Escherichia coli O157:H7 str. EDL933; Escherichia coli CFT073; Escherichia coli O157:H7 str. Sakai

Type:: Expression profiling by array

Platform:: GPL13359
8 Samples

Download data: TXT

Series

Accession:: GSE28630

ID:: 200028630

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20001432413.

Role of Manganese Efflux for Signaling and Pathogenesis in Streptococcus pneumonia

(Submitter supplied) Microarray analysis of Streptococcus pneumoniae TIGR4 transcriptome in response to manganese as the transcriptome changes in response to intracellular manganese accumulation via a mutation in sp1552/mntE a manganese efflux protein.

Organism:: Streptococcus pneumoniae TIGR4

Type:: Expression profiling by array

Platform:: GPL8038
6 Samples

Download data: GPR, PDF

Series

Accession:: GSE14324

ID:: 200014324

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20001223814.

Analysis of growth-phase regulated genes in Streptococcus agalactiae by global transcript profiling

(Submitter supplied) We determined dynamic behavior of S. agalactiae transcriptome during growth in THY medium and detected growth phase regulated genes

Organism:: Streptococcus agalactiae

Type:: Expression profiling by array

Platform:: GPL6923
12 Samples

Download data: CEL

Series

Accession:: GSE12238

ID:: 200012238

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20020865815.

Global Transcriptional Response of Escherichia coli Exposed In Situ to Different Low-Dose Ionizing Radiation Sources

(Submitter supplied) Characterization of biological and chemical responses to ionizing radiation by various organisms is essential for potential applications in bioremediation, alternative modes of detecting nuclear material, and national security. Escherichia coli DH10β is an optimal system to study the microbial response to low-dose ionizing radiation at the transcriptional level because it is a well-characterized model bacterium and its responses to other environmental stressors, including those to higher radiation doses, have been elucidated in prior studies. more...

Organism:: Escherichia coli

Type:: Expression profiling by high throughput sequencing

Platform:: GPL28126
30 Samples

Download data: TXT

Series

Accession:: GSE208658

ID:: 200208658

PubMed Full text in PMC Similar studies

Select item 20008974616.

Prediction of Cross-resistance and Collateral Sensitivity by Gene Expression profiles and Genomic Mutations.

(Submitter supplied) In adaptive evolution, an increase in fitness to an environment is frequently accompanied by changes in fitness to other environmental conditions, called cross-resistance and sensitivity. Although the networks between fitness changes affect the course of evolution substantially, the mechanisms underlying such fitness changes are yet to be fully elucidated. Herein, we performed high-throughput laboratory evolution of Escherichia coli under various stress conditions using an automated culture system, and quantified how the acquisition of resistance to one stressor alters the resistance to other stressors. more...

Organism:: Escherichia coli; Escherichia coli str. K-12 substr. MDS42

Type:: Expression profiling by array

Platform:: GPL18948
124 Samples

Download data: TXT

Series

Accession:: GSE89746

ID:: 200089746

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20007732517.

Gene expression analysis of E. coli strains provides insights into the role of gene regulation in diversification

(Submitter supplied) Escherichia coli spans a genetic continuum from enteric strains to several phylogenetically distinct, atypical lineages that are rare in humans, but more common in extra-intestinal environments. To investigate the link between gene regulation, phylogeny and diversification in this species, we analyzed global gene expression profiles of four strains representing distinct evolutionary lineages, including a well-studied laboratory strain, a typical commensal (enteric) strain and two environmental strains. more...

Organism:: Escherichia coli

Type:: Expression profiling by high throughput sequencing

Platform:: GPL14548
24 Samples

Download data: TXT

Series

Accession:: GSE77325

ID:: 200077325

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20000896518.

Evolution of gene expression during an adaptive diversification event

(Submitter supplied) During a 1,000 generations evolution experiment, two types of bacteria (S and L) repeatedly diverged from a common ancestor (A) in a fully sympatric seasonal environment containing glucose and acetate. We compare the transcription profile of the two derived types and the common ancestor in order to investigate the metabolic modifications associated with this adaptive diversification event. Keywords: time point, experimental evolution

Organism:: Escherichia coli

Type:: Expression profiling by array

Platform:: GPL5767
40 Samples

Download data

Series

Accession:: GSE8965

ID:: 200008965

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20001731419.

Evolved polymorphism in E. coli

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

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

Type:: Expression profiling by array; Genome variation profiling by array

Platform:: GPL8872
45 Samples

Download data: GPR

Series

Accession:: GSE17314

ID:: 200017314

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20001727720.

Array comparative genome hybridization of an evolved polymorphism in E. coli

(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

Series

Accession:: GSE17277

ID:: 200017277

PubMed Full text in PMC Similar studies Analyze with GEO2R

GEO DataSets

Functional Genomics Studies

Result Filters

Entry type

Organism

Study type

Author

Attribute name

Publication dates

Custom date range

Additional filters

Send to:

Links from GEO DataSets

Items: 20

Send to:

Supplemental Content

Find related data

Important Links

Recent activity