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| Status |
Public on Dec 01, 2010 |
| Title |
Transcriptome analysis of Escherichia coli O157:H7 EDL933 inside Acanthamoeba using microarrays |
| Platform organism |
Escherichia coli O157:H7 str. EDL933 |
| Sample organism |
Escherichia coli |
| Experiment type |
Expression profiling by array
|
| Summary |
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 intracellular life within a ruminant and environmental protozoan on E. coli O157:H7, global transcript levels of strain EDL933 cells inside Acanthamoeba were compared to cell grown in the protozoan media (ATCC PYG712) by microarray.
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| Overall design |
Nine independent RNA samples from cell from within Acanthamoeba were paired with seven independent RNA samples from control cultures for hybridization to nine two-color microarrays. For four arrays, the control RNA sample was labeled with Cy3 dye and the experimental RNA sample was labeled with Cy5 dye, the dyes were reversed for the other five arrays to overcome dye bias.
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| |
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| Contributor(s) |
Minion C, Carruthers MD |
| Citation(s) |
20831595 |
| Submission date |
Jun 23, 2009 |
| Last update date |
Mar 21, 2012 |
| Contact name |
Chris Minion |
| E-mail(s) |
fcminion@iastate.edu
|
| Phone |
515-294-6347
|
| Fax |
515-294-8500
|
| Organization name |
Iowa State University
|
| Department |
VMPM
|
| Street address |
1130 Vet Med
|
| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL6272 |
Escherichia coli O157:H7 EDL933 Spotted PCR Array |
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| Samples (9)
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| GSM420170 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 1 |
| GSM420171 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 2 |
| GSM420175 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 3 |
| GSM420176 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 4 |
| GSM420177 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 5 |
| GSM420178 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 6 |
| GSM420180 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 7 |
| GSM420181 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 8 |
| GSM420182 |
Escherichia coli O157:H7 EDL933 Inside Acanthamoeba vs. Control Slide 9 |
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| Relations |
| BioProject |
PRJNA117413 |
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