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| Status |
Public on Dec 02, 2022 |
| Title |
YAMAT-seq of mature tRNA pools in the bacterium Escherichia coli str. K-12 substr. MG1655 and derivatives |
| Organism |
Escherichia coli K-12 |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Mature tRNA pools were measured using an adaptation of YAMAT-seq (Shigematsu et al., 2017; doi:10.1093/nar/gkx005 ) and further described in (Ayan et al., 2020; doi:10.7554/eLife.57947) in 10 strain-medium combinations (all strains dervied from the model bacterium E. coli MG1655). The aim of the experiment was to investigate the effect of reducing tRNA gene copy number on mature tRNA pools in rich and poor media.
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| Overall design |
Three replicates of five strains (MG1655 wildtype; MG1655 with glyVXY tRNA genes removed, MG1655 with leuVPQ tRNA genes removed, MG1655 with glyU tRNA gene removed, and MG1655 with thrW tRNA gene removed), in each of two media (rich: rich LB, and poor: M9 with 0.05% galactose). 30 samples total (5 strains x 2 media x 3 reps = 30 samples).
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| Web link |
https://pubmed.ncbi.nlm.nih.gov/36862572/
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| Contributor(s) |
Gallie J, Ngan W, Raval PK, Agashe D |
| Citation(s) |
36862572 |
| |
| Submission date |
Mar 14, 2022 |
| Last update date |
Mar 03, 2023 |
| Contact name |
Jenna Gallie |
| E-mail(s) |
gallie@evolbio.mpg.de
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| Organization name |
Max Planck Institute for Evolutionary Biology
|
| Street address |
August-Thienemann Strasse 2
|
| City |
Ploen |
| ZIP/Postal code |
24306 |
| Country |
Germany |
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| Platforms (1) |
| GPL26204 |
NextSeq 550 (Escherichia coli K-12) |
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| Samples (30)
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| Relations |
| BioProject |
PRJNA816107 |
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