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| Status |
Public on Nov 29, 2010 |
| Title |
Global transcriptome analysis indicates that depletion of rps13 and ribosomes leads to cell cycle arrest in G1 |
| Organism |
Toxoplasma gondii |
| Experiment type |
Expression profiling by array
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| Summary |
Affymetrix Toxoplasma microarray data was analyzed to determine whether there was an association with a G1 transcript profile. Four hundred seventy-five genes with significant gene expression differences (Welch T-test, P = 0.01) between ±ATc samples were identified. Genes were clustered into those increased (153) or decreased (322) -ATc. There are a number of genes with diminished expression and pronounced over expression -ATc including LDH1, 4 zinc finger proteins, leucine-rich protein, and ABC transporter-like molecules, myosin-related molecules with many fold increases and one AP2 protein with a small increase. These gene sets have a large overlap with G1 genes defined in an ongoing cell cycle expression study in T. gondii (Behnke, White). Over 60% of those genes that have diminished expression -ATc overlap with genes that are diminished at G1, and over 40% of genes with increased expression -ATc overlap with genes that are up regulated at G1. A hypergeometric distribution of this association suggests that the probability of this happening by chance is essentially zero. Thus, by both methods, FACS and arrays, parasites -ATc display a G1 profile.
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| Overall design |
To determine the global transcriptional differences of the RSP13 conditional mutant with and without anhydrotetracycline (ATc). Four replicates each.
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| Contributor(s) |
McLeod R, White MW, Behnke MS |
| Citation(s) |
21124925 |
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| Submission date |
Mar 03, 2010 |
| Last update date |
Sep 20, 2012 |
| Contact name |
Michael Sean Behnke |
| E-mail(s) |
mike_behnke@yahoo.com
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| Organization name |
Washington University School of Medicine
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| Department |
Molecular Microbiology
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| Lab |
Dr David Sibley
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| Street address |
660 S. Euclid Ave
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| City |
St Louis |
| State/province |
MO |
| ZIP/Postal code |
63110 |
| Country |
USA |
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| Platforms (1) |
| GPL7186 |
[Tgondiia520372] Affymetrix Toxoplasma gondii Custom GeneChip (CDF: ToxoDB version 4) |
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| Samples (8)
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| GSM517897 |
Toxoplasma gondii RPS13 conditional mutant without ATc, 1 |
| GSM517898 |
Toxoplasma gondii RPS13 conditional mutant without ATc, 2 |
| GSM517899 |
Toxoplasma gondii RPS13 conditional mutant without ATc, 3 |
| GSM517900 |
Toxoplasma gondii RPS13 conditional mutant without ATc, 4 |
| GSM517907 |
Toxoplasma gondii RPS13 conditional mutant with ATc, 1 |
| GSM517908 |
Toxoplasma gondii RPS13 conditional mutant with ATc, 2 |
| GSM517909 |
Toxoplasma gondii RPS13 conditional mutant with ATc, 3 |
| GSM517910 |
Toxoplasma gondii RPS13 conditional mutant with ATc, 4 |
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| Relations |
| BioProject |
PRJNA124799 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE20616_RAW.tar |
7.5 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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