PXD011002

PXD011002 is an original dataset announced via ProteomeXchange.

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

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.

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;

curator keyword: Biological

submitter keyword: shotgun LC-MS/MS,grapevine, Grapevine red blotch virus, parallel reaction monitoring, Proteomics, absolute quantification

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

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PRIDE project URI

• PRIDE
  1. PXD011002
     1. Label: PRIDE project
     2. Name: Absolute Quantification of Grapevine Red Blotch Virus in Grapevine Leaf and Petiole Tissues by Proteomics