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PXD005586

PXD005586 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleCharacterization of the proteome of Theobroma cacao beans by nanoUHPLC-ESI MS/MS
DescriptionCocoa seed storage proteins play an important role in flavour development as aroma precursors are formed from their degradation during fermentation. Major proteins in the beans of Theobroma cacao are the storage proteins belonging to the vicilin and albumin fraction. Although both these classes of proteins have been fully characterized, there is still limited information on the expression and abundance of other proteins present in cocoa beans. This work is the first attempt to characterize the whole cocoa bean proteome by nanoUHPLC-ESI MS/MS analysis using tryptic digests of cocoa bean protein extracts. The results of this analysis show that a total of 906 proteins could be identified using a species-specific Theobroma cacao database. The majority of the identified proteins were involved with metabolism and energy. However, a significant number of the identified proteins were linked to protein synthesis and processing. Several proteins were also involved with plant response to stress conditions and defence. Albumin and vicilin storage proteins showed the highest intensity values among all detected proteins, although only seven entries were identified as storage proteins. A comparison of MS/MS data searches carried out against larger non-specific databases confirmed that using a species-specific database can increase the number of identified proteins, and at the same time reduce the number of false positives. The results of this work will be useful in developing tools which can allow the comparison of the proteomic profile of cocoa beans from different genotypes and geographic origins.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:35:08.354.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterEmanuele Scollo
SpeciesList scientific name: Theobroma cacao (Cacao) (Cocoa); NCBI TaxID: 3641;
ModificationListiodoacetamide derivatized residue
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02016-12-16 03:54:16ID requested
12018-01-04 02:35:52announced
22024-10-22 04:35:11announced2024-10-22: Updated project metadata.
Publication List
Scollo E, Neville D, Oruna-Concha MJ, Trotin M, Cramer R, Characterization of the Proteome of Theobroma cacao Beans by Nano-UHPLC-ESI MS/MS. Proteomics, 18(3-4):(2018) [pubmed]
10.1002/pmic.201700339;
Keyword List
curator keyword: Biological
submitter keyword: plant proteomics, storage proteins, cocoa bean proteome,Theobroma cacao, cocoa beans
Contact List
Prof Rainer Cramer
contact affiliationDepartment of Chemistry, University of Reading, Whiteknights, Reading RG6 6AD, UK
contact emailr.k.cramer@reading.ac.uk
lab head
Emanuele Scollo
contact affiliationUniversity of Reading
contact emaile.scollo@hotmail.it
dataset submitter
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Dataset FTP location
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