Basu et al. 2016 (PRJNA299306)
General Details
| Title | Ribosome hibernation factor promotes Staphyloccocal survival and differentially represses translation |
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| Organism | |
| Number of Samples | 43 |
| Release Date | 2015/10/20 00:00 |
| Sequencing Types | |
| Protocol Details |
Study Links
| GWIPS-viz | Trips-Viz |
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Repository Details
| SRA | SRP065033 |
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| ENA | SRP065033 |
| GEO | GSE74197 |
| BioProject | PRJNA299306 |
Publication
| Title | |
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| Authors | Basu A,Shields KE,Eickhoff CS,Hoft DF,Yap MN |
| Journal | Journal of bacteriology |
| Publication Date | 2018 Dec 15 |
| Abstract | The translationally silent 100S ribosome is a poorly understood form of the dimeric 70S complex that is ubiquitously found in all bacterial phyla. The elimination of the hibernating 100S ribosome leads to translational derepression, ribosome instability, antibiotic sensitivity, and biofilm defects in some bacteria. In Firmicutes , such as the opportunistic pathogen Staphylococcus aureus , a 190-amino acid protein called h ibernating- p romoting f actor (HPF) dimerizes and conjoins two 70S ribosomes through a direct interaction between the HPF homodimer, with each HPF monomer tethered on an individual 70S complex. While the formation of the 100S ribosome in gammaproteobacteria and cyanobacteria is exclusively induced during postexponential growth phase and darkness, respectively, the 100S ribosomes in Firmicutes are constitutively produced from the lag-logarithmic phase through the post-stationary phase. Very little is known about the regulatory pathways that control hpf expression and 100S ribosome abundance. Here, we show that a general stress response (GSR) sigma factor (SigB) and a GTP-sensing transcription factor (CodY) integrate nutrient and thermal signals to regulate hpf synthesis in S. aureus , resulting in an enhanced virulence of the pathogen in a mouse model of septicemic infection. CodY-dependent regulation of hpf is strain specific. An epistasis analysis further demonstrated that CodY functions upstream of the GSR pathway in a condition-dependent manner. The results reveal an important link between S. aureus stress physiology, ribosome metabolism, and infection biology. IMPORTANCE The dimerization of 70S ribosomes (100S complex) plays an important role in translational regulation and infectivity of the major human pathogen Staphylococcus aureus Although the dimerizing factor HPF has been characterized biochemically, the pathways that regulate 100S ribosome abundance remain elusive. We identified a metabolite- and nutrient-sensing transcription factor, CodY, that serves both as an activator and a repressor of hpf expression in nutrient- and temperature-dependent manners. Furthermore, CodY-mediated activation of hpf masks a secondary hpf transcript derived from a general stress response SigB promoter. CodY and SigB regulate a repertoire of virulence genes. The unexpected link between ribosome homeostasis and the two master virulence regulators provides new opportunities for alternative druggable sites. Copyright © 2018 Basu et al. |
| PMC | PMC6256015 |
| PMID | 30297357 |
| DOI |
| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) | ||
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| SRR2733429 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq |  |
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| SRR2733430 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733433 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733434 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733437 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733438 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733441 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733442 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733445 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733446 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733449 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733450 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733453 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733454 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733457 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733458 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733461 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733462 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733465 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733466 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733469 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733470 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733473 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733474 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733477 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733478 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733481 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733482 | PRJNA299306 | Staphylococcus aureus | RNA-Seq | |
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| SRR2733431 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733432 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733435 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733436 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733447 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733448 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733451 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733452 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733460 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733463 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733464 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733471 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733472 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733475 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| SRR2733476 | PRJNA299306 | Staphylococcus aureus | Ribo-Seq | |
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| Run Accession | Study Accession | Scientific Name | Cell Line | Library Type | Treatment | GWIPS-viz | Trips-Viz | Reads | BAM | BigWig (F) | BigWig (R) |
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