PXD035104

PXD035104 is an original dataset announced via ProteomeXchange.

Title	Unusual composition of the mitochondrial pyruvate dehydrogenase complex from the widespread marine protist group diplonemids
Description	In eukaryotes, pyruvate, a key metabolite produced by glycolysis, is converted by a mitochondrial pyruvate dehydrogenase complex (PDH) to acetyl-coenzyme A, which is fed into the tricarboxylic acid cycle. Two additional enzyme complexes catalyze similar oxidative decarboxylation reactions albeit using different substrates, the branched-chain ketoacid dehydrogenase (BCKDH) and the 2-oxoglutarate dehydrogenase (OGDH). In diplonemids, one of the most abundant and diverse groups of oceanic protists, comparative transcriptome analyses indicated that their PDH complex is compositionally unique, with the conventional E1 subunit replaced by an aceE protein of prokaryotic origin. Here we demonstrate in the model diplonemid Paradiplonema papillatum that the pyruvate dehydrogenase activity is comparable to that in other euglenozoan protists. By protein mass spectrometry we revealed that the aceE protein is twice as abundant as the E1 subunits of OGDH and enriched in the mitochondrion to the same level as the BCKDH E1 subunits, corroborating the functional relevance of the proposed aceE subunit of the PDH complex. Importantly, the acquisition of the archaeal aceE by the diplonemid ancestor led not only to the complete loss of the eukaryotic-type E1 of the PDH complex, but also its dedicated E2 and E3 subunits, still present in other euglenozoans. Hence, to reconstitute the diplonemid PDH, the aceE protein needs to partner with E2 and E3 subunits of BCKDH and/or OGDH. The diplonemid example illustrates that the acquisition and successful integration of a foreign E1p can profoundly reorganize the entire PDH complex.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:46:26.896.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD035104
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Maksym Danchenko
SpeciesList	scientific name: Diplonema papillatum; NCBI TaxID: 91374;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-06 14:10:01	ID requested
1	2023-07-28 01:59:53	announced
⏵ 2	2023-11-14 06:46:27	announced	2023-11-14: Updated project metadata.

10.6019/PXD035104;

submitter keyword: Paradiplonema papillatum, 2-oxoglutarate dehydrogenase, branched-chain ketoacid dehydrogenase

Peter Baráth
contact affiliation	Department of Glycobiology, Institute of Chemistry, Slovak Academy of Sciences
contact email	peter.barath@savba.sk
lab head
Maksym Danchenko
contact affiliation	Plant Science and Biodiversity Center SAS
contact email	maxymdan@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD035104
     1. Label: PRIDE project
     2. Name: Unusual composition of the mitochondrial pyruvate dehydrogenase complex from the widespread marine protist group diplonemids