PXD045008

PXD045008 is an original dataset announced via ProteomeXchange.

Title	Metabolic crises of c-diAMP free-mutant and its receptor protein SbtB under diurnal rhythms in cyanobacteria
Description	As photoautotrophic organisms, cyanobacteria are subjected to the natural diurnal rhythm. Thus, cyanobacteria face strong metabolomic changes that allow photosynthesis and glycogen anabolism throughout the day, while night phases require the adaption to a heterotrophic-like lifestyle, including glycogen catabolism. Previous studies highlighted the importance of both, SbtB and its effector molecule c-diAMP, for the nighttime survivability of Synechocystis through the regulation of glycogen synthesis. However, the extent of the cellular c-diAMP and SbtB impact for day/night survivability remained elusive. To get better understanding of cellular processes under SbtB or c-diAMP regulation, we compared metabolomic and proteomic characterizations of both a SbtB knockout (ΔsbtB) and a c-diAMP free (ΔdacA) mutant of the model strain Synechocystis sp. PCC 6803. While our data indicates that the cellular role of SbtB for nighttime survivability is solely restricted to carbon/glycogen metabolism, the diurnal lethality of ΔdacA seems to be a sum of cellular dysregulations among several metabolic processes. These processes include photosystem assembly and redox regulation, which leads to elevated levels of intracellular ROS and glutathione. Further, we were able to show an impact of c-diAMP on central carbon as well as nitrogen metabolism. The latter can be directly linked to reduced levels of NtcA, the global nitrogen transcription regulator. Thus, dysregulations of NtcA regulated proteins lead to an imbalance of the glutamine to glutamate ratio, reduced amounts of bioproducts of the ornithine pathway, such as arginine, and elevated levels of urea as a degradation product.
HostingRepository	PRIDE
AnnounceDate	2025-08-21
AnnouncementXML	Submission_2025-08-21_05:26:50.328.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Philipp Spaet
SpeciesList	scientific name: Synechocystis sp. (strain PCC 6803 / Kazusa); NCBI TaxID: 1111708; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-31 09:57:37	ID requested
⏵ 1	2025-08-21 05:26:50	announced

10.1016/J.ISCI.2025.113261;

submitter keyword: PII-like protein SbtB

c-diAMP signalling

Synechocystis sp

Khaled A. Selim
contact affiliation	Interfaculty Institute for Microbiology and Infection Medicine, Organismic Interactions Department, Tübingen University, Auf der Morgenstelle 28, 72076 Tübingen, Germany
contact email	khaled.selim@uni-tuebingen.de
lab head
Philipp Spaet
contact affiliation	University Tuebingen Department of Quantitative Proteomics
contact email	philipp.spaet@uni-tuebingen.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2025/08/PXD045008

PRIDE project URI

• PRIDE
  1. PXD045008
     1. Label: PRIDE project
     2. Name: Metabolic crises of c-diAMP free-mutant and its receptor protein SbtB under diurnal rhythms in cyanobacteria