PXD041920-1

PXD041920 is an original dataset announced via ProteomeXchange.

Title	Analysis of pyrenoid proteome in the diatom Phaeodactylum tricornutum
Description	Diatoms are a major primary producer accounting for 20% of the global primary production. Their massive carbon fixation is driven by the CO2-concentrating mechanisms (CCM), in which CO2 is actively supplied to the Rubisco localized in the pyrenoid, a membrane-less organelle of the plastid. To promote CO2 fixation, CO2 concentration in the pyrenoid matrix is assumed to be elevated while leakage of CO2 is minimized. However, due to the lack of information on the structural basis of diatom pyrenoid, the mechanism allowing efficient CO2 supply in conjunction with pyrenoid structure remains to be elucidated. While isolation of diatom pyrenoid is technically difficult due to structural instability, here we applied in vivo crosslinking using photo amino acids (pAA) which enabled us to obtain Rubisco enriched fractions. Based on LC-MS/MS analysis of the RbcL-enriched fraction, we identified a novel protein that surrounds the pyrenoid like a shell and hence named a Pyshell (Pyrenoid shell). Using genome-edited mutants, Pyshell was demonstrated to be a critical component required for growth under CO2-limiting conditions. The comprehensive analysis and identification of the pyrenoid component gave an important insight into the molecular basis driving the oceanic primary production.
HostingRepository	jPOST
AnnounceDate	2024-05-04
AnnouncementXML	Submission_2024-05-03_08:00:22.934.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD041920
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Hiroaki Matsui
SpeciesList	scientific name: Phaeodactylum tricornutum; NCBI TaxID: 2850;
ModificationList	S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; unknown modification; unknown modification
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2023-05-01 22:06:59	ID requested
⏵ 1	2024-05-03 08:00:23	announced

Dataset with its publication pending

submitter keyword: CO2-concentrating mechanism, diatom, photoreactive amino acids, pyrenoid

Yusuke Matsuda
lab head
Hiroaki Matsui
contact affiliation	Kwansei Gakuin University
dataset submitter

jPOST dataset URI

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