PXD014662

PXD014662 is an original dataset announced via ProteomeXchange.

Title	Cyanobacterial proteome mapping reveals distinct compartment organisation and metabolism dispersed throughout the cell
Description	Cyanobacteria are complex prokaryotes, incorporating a Gram-negative cell wall and internal thylakoid membranes (TM). However, localisation of proteins within cyanobacterial cells is poorly understood. Using subcellular fractionation and quantitative proteomics we report the first subcellular map of the proteome of an entire cyanobacterial (or any other prokaryotic) cell, identifying ~67% of Synechocystis sp. PCC 6803 proteins, ~1000 more than previous studies. 1,712 proteins were assigned to six specific subcellular regions. Proteins involved in energy generation localised to TMs. The majority of transporters, with the exception of the TM localised copper importer CtaA, resided in the plasma membrane (PM). Most metabolic enzymes are soluble although numerous pathways terminated in the TM (notably those involved in peptidoglycan monomer, NADP+, heme, lipid and carotenoid biosynthesis), or the PM (specifically those catalysing lipopolysaccharide, molybdopterin, flavin adenine dinucleotide and menaquinone biosynthesis). Furthermore, we identified the proteins involved in the TM and PM electron transport chains. The majority of ribosomal proteins and enzymes synthesising the storage compound polyhydroxybuyrate formed distinct clusters within the data suggesting that they have similar subcellular distributions to one another as one would expect for proteins operating within multi-component protein structures. Moreover, heterogeneity within membrane and cytoplasmic regions is observed, indicating further cellular complexity. Cyanobacterial TM protein localisation is conserved in Arabidopsis thaliana chloroplasts, suggesting similar proteome organisation in higher photosynthetic organisms. The organisation of a cyanobacterial cell revealed here will significantly aid our understanding of these environmentally and biotechnological important organisms. The successful application of this technique in Synechocystis suggests it could be applied to mapping the proteomes of other cyanobacteria and complex single-celled organisms.
HostingRepository	PRIDE
AnnounceDate	2019-10-31
AnnouncementXML	Submission_2019-10-31_08:15:24.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kathryn Lilley
SpeciesList	scientific name: Synechocystis sp. PCC 6803; NCBI TaxID: 1148;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-18 05:34:51	ID requested
⏵ 1	2019-10-31 08:15:26	announced

Baers LL, Breckels LM, Mills LA, Gatto L, Deery MJ, Stevens TJ, Howe CJ, Lilley KS, Lea-Smith DJ, Proteome Mapping of a Cyanobacterium Reveals Distinct Compartment Organization and Cell-Dispersed Metabolism. Plant Physiol, 181(4):1721-1738(2019) [pubmed]

submitter keyword: cyanobacteria, spatial proteomics, LOPIT,Synechocystis

Kathryn S Lilley
contact affiliation	Department of Biochemistry University of Cambridge Cambridge UK CB2 1GA
contact email	k.s.lilley@bioc.cam.ac.uk
lab head
Kathryn Lilley
contact affiliation	University of Cambridge
contact email	ksl23@cam.ac.uk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD014662
     1. Label: PRIDE project
     2. Name: Cyanobacterial proteome mapping reveals distinct compartment organisation and metabolism dispersed throughout the cell