PXD034015

PXD034015 is an original dataset announced via ProteomeXchange.

Title	Comparative whole cell proteomics data of Vibrio cholerae O1 biovar El Tor str. N16961 versus full length cgtA knockdown and CgtA(∆CTD) during nutrient limiting condition
Description	Adapting to nutritional downshifts is crucial for the survival of Vibrio cholerae. CgtA, a 50S ribosome-associated essential GTPase, is a bonafide stringent response protein. CgtA, in association with SpoT, modulates the intracellular (p)ppGpp alarmone levels in a nutrient-rich environment. We studied the influence of CgtA during the growth of V. cholerae in a minimal medium in contrast to its pre-defined role in a nutrient-rich medium. Here, we show the pleiotropic effects of CgtA on growth, viability, motility, morphology, and persister phenotype of a V. cholerae strain where the full-length wildtype (Wt) cgtA was deleted. An in-frame deletion of the 52 amino acids long unstructured C-terminal domain of the CgtA GTPase defined its in vivo functionality. Proteomic analyses revealed that loss of CgtA significantly altered 311 proteins involved in diverse cellular processes. However, the CgtA C-terminus deleted strain altered 240 proteins with a major overlap with the full-length cgtA deleted condition. A sustained mRNA expression pattern of CgtA is observed in a minimal medium. Whereas, in nutrient-rich LB medium, intermittent expression of cgtA is observed with the highest expression during the late-logarithmic to early-stationary phase. We propose that minimal media-associated nutrient stress coupled to cgtA depletion aggravates the intracellular stress in V. cholerae, leading to abnormal protein synthesis, altered DNA replication, and transcriptional machinery, negatively affecting cellular energy metabolism and many vital processes. This study suggests that the nutrient-media-dependent controlled expression of CgtA is a mechanism by which V. cholerae can remodel its transcriptome and proteome. Our study reveals an alternative facet of the survival of V. cholerae during nutritional downshift and the consequences concomitantly with cgtA knockdown as evident from the complex altered regulatory network.
HostingRepository	PRIDE
AnnounceDate	2023-03-03
AnnouncementXML	Submission_2023-03-03_07:26:21.441.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Partha PratimDatta
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961); NCBI TaxID: 243277;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-20 10:43:44	ID requested
⏵ 1	2023-03-03 07:26:21	announced

Dataset with its publication pending

submitter keyword: CgtA GTPase, C-terminal domain CgtA truncation, nutrient limitation,Vibrio cholerae, ribosome, pleiotropic effects, cgtA knockdown

Dr. Partha PratimDatta
contact affiliation	Department of Biological Sciences, Indian Institute of Science Education and Research (IISER), Kolkata, Mohanpur, District: Nadia, West Bengal, Pin Code: 741246, India
contact email	partha_datta@iiserkol.ac.in
lab head
Partha PratimDatta
contact affiliation	Indian Institute of Science Education and Research (IISER), Kolkata
contact email	partha_datta@iiserkol.ac.in
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034015
     1. Label: PRIDE project
     2. Name: Comparative whole cell proteomics data of Vibrio cholerae O1 biovar El Tor str. N16961 versus full length cgtA knockdown and CgtA(∆CTD) during nutrient limiting condition