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| Status |
Public on Jul 30, 2001 |
| Title |
Tryptophan metabolism response in E. coli |
| Organism |
Escherichia coli |
| Experiment type |
Expression profiling by array
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| Summary |
DNA microarray analysis of gene expression in response to physiological and genetic changes that affect tryptophan metabolism in Escherichia coli.
We investigated the global changes in mRNA abundance in Escherichia coli elicited by various perturbations of tryptophan metabolism. To do so we printed DNA microarrays containing 95% of all annotated E. coli ORFs. We determined the expression profile that is predominantly dictated by the activity of the tryptophan repressor. Only three operons, trp, mtr, and aroH, exhibited appreciable expression changes consistent with this profile. The quantitative changes we observed in mRNA levels for the five genes of the trp operon were consistent within a factor of 2, with expectations based on established Trp protein levels. Several operons known to be regulated by the TyrR protein, aroF-tyrA, aroL, aroP, and aroG, were down-regulated on addition of tryptophan. TyrR can be activated by any one of the three aromatic amino acids. Only one operon, tnaAB, was significantly activated by the presence of tryptophan in the medium. We uncovered a plethora of likely indirect effects of changes in tryptophan metabolism on intracellular mRNA pools, most prominent of which was the sensitivity of arginine biosynthetic operons to tryptophan starvation.
This study is detailed in Khodursky AB et al.(2000) Proc Natl Acad Sci U S A 97:12170-5
Keywords: other
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| Contributor(s) |
Khodursky AB, Peter BJ, Cozzarelli NR, Botstein D, Brown PO, Yanofsky C |
| Citation(s) |
11027315 |
| Submission date |
Jul 30, 2001 |
| Last update date |
Feb 23, 2012 |
| Organization |
Stanford Microarray Database (SMD) |
| E-mail(s) |
array@genome.stanford.edu
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| Phone |
650-498-6012
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| URL |
http://genome-www5.stanford.edu/
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| Department |
Stanford University, School of Medicine
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| Street address |
300 Pasteur Drive
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (2) |
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| Samples (29)
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| GSM513 |
tnaA2,W3110 minimal +Trp 50ug/ml vs. dnaC genomic DNA |
| GSM514 |
trpR2tnaA2,W3110 minimal +Trp 50ug/ml vs. dnaC genomic DNA |
| GSM515 |
5' vs 0' in minimal medium +0.2% glu |
| GSM516 |
15' vs 0' in minimal medium +0.2% glu |
| GSM517 |
30' vs 0' in minimal medium +0.2% glu |
| GSM519 |
60' vs 0' in minimal medium +0.2% glu, II |
| GSM531 |
5'+50ug/ml Trp vs 0' in min med +0.2% glu |
| GSM532 |
15'+50ug/ml Trp vs 0' in min med +0.2% glu |
| GSM533 |
30'+50ug/ml Trp vs 0' in min med +0.2% glu |
| GSM534 |
60'+50ug/ml Trp vs 0' in min med +0.2% glu |
| GSM535 |
wt +trp vs. -trp, min+.2%glucose, W3110 |
| GSM536 |
tnaA2trpR2 vs. tnaA2, W3110 min +Trp 50ug/ml |
| GSM537 |
trpR2 vs. wt, min+.2%glucose, W3110 |
| GSM538 |
trpR2+50ug/ml Trp vs. wt+50ug/ml Trp |
| GSM539 |
trpR2 +trp vs. -trp, min+.2%glucose, W3110 |
| GSM540 |
trpEA2trpR2 vs. trpEA2, W3110 min +Trp 50ug/ml |
| GSM541 |
tnaA2trpA46PR9 vs. tnaA2, W3110 min |
| GSM555 |
cy_a4 |
| GSM556 |
cy_b4 |
| GSM557 |
cyc1 |
| GSM558 |
cyc2 |
| GSM559 |
cyc3 |
| GSM560 |
cyc4 |
| GSM561 |
cyd1 |
| GSM562 |
cyd2 |
| GSM563 |
cyd3 |
| GSM564 |
cyd4 |
| GSM565 |
60' vs. 0', 50 ug/ml tryptophan, minimal +02% glu |
| GSM570 |
60' vs 0' in minimal medium +0.2% glu |
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| Relations |
| BioProject |
PRJNA85445 |
| Supplementary data files not provided |
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