⮝ Full datasets listing

PXD011984

PXD011984 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleUHPLC-MS/MS analysis of the proteomic profiles of cocoa beans from different genotypes
DescriptionAmongst other compounds, cocoa flavour is dependent on peptides that are formed during fermentation of cocoa beans from proteins such as albumin and vicilin. In this study the proteomic profiles of cocoa beans from four genotypes (ICS 1, ICS 39, IMC 67 and SCA 6) with different genetic background and flavour profiles have been analysed by employing a bottom-up label free LC-MS/MS approach. From a total of 430 identified proteins, 250 proteins were found significantly differentially expressed among the four cocoa genotypes analysed. Of these, 61 proteins with a fold change of 2 or more were further investigated, showing that the majority is involved in stress response. Furthermore, several of these 61 proteins could also be linked to oxidation-reduction processes. PCA analysis allowed a clear separation of the genotypes based on their proteomic profile, with an aminohydrolase and a sulphite oxidase greatly contributing to the separation. Aspartyl protease was more abundant in the genotypes ICS 1 and ICS compared to IMC 67, while a serine carboxypeptidase was significantly more expressed in the genotype ICS 39 in comparison with the other genotypes. Both these enzymes catalyse the degradation of storage proteins during fermentation. A Beta-amylase, an enzyme which catalyses the release of maltose was detected at a significantly higher level in the genotype SCA 6 compared to ICS 1 and IMC 67. Two Amine oxidases were significantly more abundant in the genotype SCA 6 compared to ICS 39, and in the genotype ICS 1 versus ICS 39, while two alcohol dehydrogenase were higher expressed in the genotype SCA 6 compared to IMC 67. These enzyme catalyse oxidation of amines and alcohols with release of aldehydes and ketones. The data shows that UHPLC-MS/MS can be employed to differentiate cocoa beans from various varieties, and thus in theory be linked to differences in their flavour profile.
HostingRepositoryPRIDE
AnnounceDate2019-08-15
AnnouncementXMLSubmission_2019-08-30_00:43:55.xml
DigitalObjectIdentifierhttps://dx.doi.org/10.6019/PXD011984
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportSupported dataset by repository
PrimarySubmitterEmanuele Scollo
SpeciesList scientific name: Theobroma cacao (Cacao) (Cocoa); NCBI TaxID: 3641;
ModificationListOxidation; Acetyl; Carbamidomethyl
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-12-10 01:42:37ID requested
12019-08-15 02:56:14announced
22019-08-30 00:43:56announcedUpdated publication reference for PubMed record(s): 31445177.
Publication List
Scollo E, Neville DCA, Oruna-Concha MJ, Trotin M, Cramer R, UHPLC-MS/MS analysis of cocoa bean proteomes from four different genotypes. Food Chem, 303():125244(2020) [pubmed]
Keyword List
curator keyword: Biological
submitter keyword: Cocoa beans, label free quantitation, plant proteomics, cocoa beans proteome, Theobroma cacao
Contact List
Professor Rainer Cramer
contact affiliationUniversity of Reading
contact emailr.k.cramer@rdg.ac.uk
lab head
Emanuele Scollo
contact affiliationUniversity of Reading
contact emaile.scollo@hotmail.it
dataset submitter
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/08/PXD011984
PRIDE project URI
Repository Record List
[ + ]