PXD009736

PXD009736 is an original dataset announced via ProteomeXchange.

Title	The response of the Escherichia coli proteome to deuteration and minimal media
Description	Substitution of hydrogen for deuterium strongly affects biological systems. While higher eukaryotes, such as plants and mammals, hardly survive >30% deuterium content of water and nutrients, many microorganisms can grow on fully deuterated media albeit at reduced rates. Due to the large relative mass change, H/D replacement leads to pronounced changes in chemical reaction rates and equilibria. Very little is known how these physico-chemical effects influence cellular life at the systems level. Here we have followed the adaptation of a large part of the E. coli proteome from growth on a protonated full medium, over a protonated minimal to a completely deuterated minimal medium. More than 1800 proteins could be quantified under all conditions and several hundreds show strong regulation in both adaptation processes. As expected, the adaption to minimal medium mostly upregulates amino acid synthesis and sugar metabolism. In contrast, deuteration causes a very wide response over many cell function categories. No morphological effects are apparent under light and electron microscopy. Most of the regulated proteins have enzymatic functions involving hydrogen transfer reactions. This indicates that kinetic isotope effects and not changes in biomolecular stability are the dominant mechanisms that affect cellular function under deuteration.
HostingRepository	PRIDE
AnnounceDate	2020-05-26
AnnouncementXML	Submission_2020-05-26_11:52:26.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD009736
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Alexander Schmidt
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	Oxidation; Acetyl; Carbamidomethyl
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2018-05-10 01:46:06	ID requested
⏵ 1	2020-05-26 11:52:27	announced

Opitz C, Ahrn, é E, Goldie KN, Schmidt A, Grzesiek S, proteome that correlates with the reduction in growth rate. J Biol Chem, 294(7):2279-2292(2019) [pubmed]

curator keyword: Technical, Biological

submitter keyword: Ecoli, Deuteration, label-free quantification

Alexander Schmidt
contact affiliation	Proteomics Core Facilty, Biozentrum, University of Basel
contact email	alex.schmidt@unibas.ch
lab head
Alexander Schmidt
contact affiliation	Proteomics Core Facility
contact email	alex.schmidt@unibas.ch
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD009736
     1. Label: PRIDE project
     2. Name: The response of the Escherichia coli proteome to deuteration and minimal media