PXD024231 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | A proteomic study of bacterial growth arrest in a synthetic biology application |
Description | Scaling up the functioning of synthetic circuits from microplates to bioreactors is far from trivial to achieve. We here test the scalability performance of a previously developed growth switch for increasing product yields in bacteria, based on external control of RNA polymerase expression. We show that, in liter-scale bioreactors operating in fed-batch mode, growth-arrested Escherichia coli cells are able to convert glucose to glycerol at an increased yield. A multi-omics quantification of the physiology of the cells shows that apart from acetate production, few metabolic side-effects occur, while a number of specific responses to growth slow-down and growth arrest are launched on the transcriptional level. These responses include the downregulation of genes involved in growth-associated processes, such as amino acid and nucleotide metabolism and translation, and the upregulation of heat shock genes. Interestingly, these transcriptional responses are buffered on the proteomic level, probably due to the strong decrease of the total mRNA concentration after the diminution of transcriptional activity and the absence of growth dilution of proteins. This transforms the growth-arrested cells in “bags of proteins“ with a functioning metabolism. More generally, the analysis shows that physiological characterization of bacterial cells hosting a synthetic circuit may reveal complex patterns of adaptation on different time-scales, dynamically interacting with the bioreactor environment. |
HostingRepository | PRIDE |
AnnounceDate | 2021-11-25 |
AnnouncementXML | Submission_2021-11-25_08:14:45.680.xml |
DigitalObjectIdentifier | https://dx.doi.org/10.6019/PXD024231 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | Yohann Couté |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; |
ModificationList | monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2021-02-18 01:39:09 | ID requested | |
⏵ 1 | 2021-11-25 08:14:46 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Escherichia coli, metabolic engineering, growth switch, nanoLC-MS/MS |
Contact List
Virginie Brun |
contact affiliation | EDyP |
contact email | virginie.brun@cea.fr |
lab head | |
Yohann Couté |
contact affiliation | EDyP |
contact email | yohann.coute@cea.fr |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD024231
- Label: PRIDE project
- Name: A proteomic study of bacterial growth arrest in a synthetic biology application