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| Status |
Public on Jul 08, 2020 |
| Title |
Gene expression data from bladder cells treated with Escherichia coli Extracellular Vesicles RNA |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by array
|
| Summary |
Escherichia coli release Extracellular Vesicles (EVs) which carry diverse molecular cargo. Pathogenic E.coli EVs contain virulence factors which assist during infection in the host in different mechanisms.The RNA cargo of E.coli EVs has not been assessed in their effect in the host. We used microarray data to asses and compare the global response of bladder cells to EV-RNA from pathogenic E.coli (Uropathogenic UPEC 536) and non-pathogenic E. coli (probiotic Nissle 1917)
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| Overall design |
EVs were isolated from RPMI-grown bacterial cultures, following centrifugation of spent medium, filtration, concentration and ultracentrifugation. Pelleted EVs were further purified using Size Exclusion Chromatography columns. RNA was extracted from pure EV preparations using a commercial kit and RNA quantified by Qubit. In vitro cultured bladder cells (5637) were treated with EV-RNA for 4 hours, after which cells were washed, removed and kept in TriZol at -80C until processing. RNA was extracted from bladder cells using a commercial kit and RNA quantified by Qubit, before determining the gene expression response by microarray technology.
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| Contributor(s) |
Dauros-Singorenko P, Blenkiron C, Hong J, Swift S, Phillips A |
| Citation(s) |
33102527 |
| Submission date |
Apr 15, 2020 |
| Last update date |
Nov 02, 2020 |
| Contact name |
Priscila Pamela Dauros-Singorenko |
| E-mail(s) |
p.dauros@auckland.ac.nz
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| Organization name |
University of Auckland
|
| Street address |
85 Park road, Grafton
|
| City |
Auckland |
| State/province |
Auckland |
| ZIP/Postal code |
1023 |
| Country |
New Zealand |
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| Platforms (1) |
| GPL23159 |
[Clariom_S_Human] Affymetrix Clariom S Assay, Human (Includes Pico Assay) |
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| Samples (21)
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| GSM4477062 |
bladder cell_UPEC EV-RNA_Iron sufficient_4 hours_replicate 1 |
| GSM4477063 |
bladder cell_UPEC EV-RNA_Iron sufficient_4 hours_replicate 2 |
| GSM4477064 |
bladder cell_UPEC EV-RNA_Iron sufficient_4 hours_replicate 3 |
| GSM4477065 |
bladder cell_UPEC EV-RNA_Iron restricted_4 hours_replicate 1 |
| GSM4477066 |
bladder cell_UPEC EV-RNA_Iron restricted_4 hours_replicate 2 |
| GSM4477067 |
bladder cell_UPEC EV-RNA_Iron restricted_4 hours_replicate 3 |
| GSM4477068 |
bladder cell_Nissle EV-RNA_Iron sufficient_4 hours_replicate 1 |
| GSM4477069 |
bladder cell_Nissle EV-RNA_Iron sufficient_4 hours_replicate 2 |
| GSM4477070 |
bladder cell_Nissle EV-RNA_Iron sufficient_4 hours_replicate 3 |
| GSM4477071 |
bladder cell_Nissle EV-RNA_Iron restricted_4 hours_replicate 1 |
| GSM4477072 |
bladder cell_Nissle EV-RNA_Iron restricted_4 hours_replicate 2 |
| GSM4477073 |
bladder cell_Nissle EV-RNA_Iron restricted_4 hours_replicate 3 |
| GSM4477074 |
bladder cell_High dose LPS_4 hours_replicate 1 |
| GSM4477075 |
bladder cell_High dose LPS_4 hours_replicate 2 |
| GSM4477076 |
bladder cell_High dose LPS_4 hours_replicate 3 |
| GSM4477077 |
bladder cell_Low dose LPS_4 hours_replicate 1 |
| GSM4477078 |
bladder cell_Low dose LPS_4 hours_replicate 2 |
| GSM4477079 |
bladder cell_Low dose LPS_4 hours_replicate 3 |
| GSM4477080 |
bladder cell_Untreated_4 hours_replicate 1 |
| GSM4477081 |
bladder cell_Untreated_4 hours_replicate 2 |
| GSM4477082 |
bladder cell_Untreated_4 hours_replicate 3 |
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| Relations |
| BioProject |
PRJNA625483 |
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