PXD035632-2

PXD035632 is an original dataset announced via ProteomeXchange.

Title	Absolute quantification of cellular levels of photosynthesis-related proteins in Synechocystis sp. PCC 6803
Description	We quantified proteins in the model cyanobacterium Synechocystis sp. PCC 6803 given the general importance of cyanobacteria for global photosynthesis, for synthetic biology and biotechnology research, and their ancestral relationship to the chloroplasts of plants. Four mass spectrometry methods were used to quantify 97 cellular components involved in the biosynthesis of chlorophyll, carotenoid and bilin pigments, membrane assembly, the light reactions of photosynthesis, fixation of carbon dioxide and nitrogen, and hydrogen and sulfur metabolism. One quantification method was calibrated with artificial 15N-labelled proteins comprising concatenated proteotypic tryptic peptides and the other three methods were label-free (DDA-iBAQ, DDA-Top3, DIA-Top3) calibrated with the Sigma UPS2 standard protein mixture. As expected, the quantification methods gave individual distributions of abundance levels for each target protein that, for statistical validity, were not combined into single central tendency and variation metrics. Instead, overlapping distributions were merged to provide consensus abundance ranges. Quantification, expressed as copy numbers per cell (cpc), spanned four orders of magnitude, representing the complete abundance range from <1000 to >100,000 cpc of the proteins representing the complexes and pathways that were the focus of this study.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:57:20.476.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Philip Jackson
SpeciesList	scientific name: Synechocystis sp. PCC 6803 substr. GT-I; NCBI TaxID: 1080228;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-29 07:24:56	ID requested
1	2023-01-04 04:54:57	announced
⏵ 2	2023-11-14 08:57:20	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: Assembly factor, Photosystem, Electron transport, Mass spectrometry, Photosynthesis,Synechocystis, Cyanobacteria, Chlorophyll

Neil Hunter
contact affiliation	School of Biosciences, University of Sheffield
contact email	c.n.hunter@sheffield.ac.uk
lab head
Philip Jackson
contact affiliation	School of Biosciences, University of Sheffield
contact email	p.j.jackson@sheffield.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD035632
     1. Label: PRIDE project
     2. Name: Absolute quantification of cellular levels of photosynthesis-related proteins in Synechocystis sp. PCC 6803