PXD011002 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Absolute Quantification of Grapevine Red Blotch Virus in Grapevine Leaf and Petiole Tissues by Proteomics |
Description | Grapevine red blotch is a recently identified viral disease that was first recognized in the Napa Valley of California. Infected plants showed foliar symptoms similar to leafroll, another grapevine viral disease, on vines testing negative for known grapevine leafroll-associated virus. Later, the Grapevine red blotch virus (GRBV) was independently discovered in the US states of California and New York and was demonstrated to be the causal agent of red blotch disease. Due to its wide occurrence in the US, vector transmission and impacts on grape industry, this virus has the potential to cause serious economic losses. Despite numerous attempts, it was not possible to isolate or visualize viral particles from GRBV infected plants. Consequently, this has hampered the development of a serological assay that would facilitate GRBV detection in grapevine. We therefore decided to explore mass spectrometry approaches in order to quantify GRBV in infected plants and to identify potential biomarkers for viral infection. We present for the first time the physical detection on the protein level of the two GRBV genes V1 (coat protein) and V2 in grapevine tissue lysates. The GRBV coat protein load in leaf petioles was determined to be in the range of 100 to 900 million copies per milligram wet weight by using three heavy isotope labeled reference peptides as internal standards. The V1 copy number per unit wet tissue weight in leaves appeared to be about six times lower, and about 200-times lower in terms of protein concentration in the extractable protein mass than in petioles. We found a consistent upregulation of several enzymes involved in flavonoid biosynthesis in leaf and petiole extracts of GRBV-infected plants by label-free shotgun proteomics, indicating the activation of a defense mechanism against GRBV, a plant response already described for grapevine leafroll associated virus infection on the transcriptome level. Last but not least, we identified some other microorganisms belonging to the grapevine leaf microbiota, two bacterial species (Novosphingobium sp. Rr 2-17 and Methylobacterium) and one virus, Grapevine rupestris stem pitting associated virus. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_04:48:43.141.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Manfred Heller |
SpeciesList | scientific name: Vitis vinifera (Grape); NCBI TaxID: 29760; |
ModificationList | monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue |
Instrument | Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2018-09-04 03:48:03 | ID requested | |
1 | 2018-12-19 07:04:22 | announced | |
2 | 2018-12-21 05:24:05 | announced | Updated publication reference for PubMed record(s): 30555495. |
⏵ 3 | 2024-10-22 04:48:45 | announced | 2024-10-22: Updated project metadata. |
Publication List
Buchs N, Braga-Lagache S, Uldry AC, Brodard J, Debonneville C, Reynard JS, Heller M, in Grapevine Leaf and Petiole Tissues by Proteomics. Front Plant Sci, 9():1735(2018) [pubmed] |
10.3389/fpls.2018.01735; |
Keyword List
curator keyword: Biological |
submitter keyword: shotgun LC-MS/MS,grapevine, Grapevine red blotch virus, parallel reaction monitoring, Proteomics, absolute quantification |
Contact List
Manfred Heller |
contact affiliation | Proteomics and Mass Spectrometry Core Facility, Department for BioMedical Research (DBMR), University of Bern, CH-3101 Bern, Switzerland |
contact email | manfred.heller@dbmr.unibe.ch |
lab head | |
Manfred Heller |
contact affiliation | University of Bern |
contact email | manfred.heller@dbmr.unibe.ch |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD011002
- Label: PRIDE project
- Name: Absolute Quantification of Grapevine Red Blotch Virus in Grapevine Leaf and Petiole Tissues by Proteomics