PXD006338

PXD006338 is an original dataset announced via ProteomeXchange.

Title	Evaluation of a bead-free immunoprecipitation technique coupled with tandem mass spectrometry for identification of plant-virus protein interactions (DeBlasio_JBT_2017)
Description	Potato leafroll virus (PLRV) is an aphid-borne, RNA virus in the Luteoviridae that causes significant loss to potato production worldwide. Precision methods to block virus infection in plants or the transmission of a virus by the insect represent new approaches to virus disease management and require an in depth knowledge of the protein interactions used by viruses in their plant hosts and aphid vectors. In this study, we evaluated the feasibility of using an inexpensive, bead-free assay to identify plant proteins that interact with wild-type (WT) and PLRV mutant form. Comparison of host and viral proteins identified as enriched ³2-fold in both WT and mutant experiments using the bead-free method revealed a ~65% overlap with proteins identified as forming high-confident interactions with PLRV using antibody coated-magnetic beads with 19 of these proteins also detected as significant interactions in the bead-free assay. An additional 18 virus-host interactions were only identified in the bead-free assay. Two prey proteins, a 14-3-3 signal transduction protein and malate dehydrogenase 2, were identified as having a weakened or lost association with the mutant form of the virus in both immunoprecipitation assays, showing that the method is sensitive enough to detect quantitative differences between different, yet closely related viral bait proteins. Collectively, our analysis shows that the bead-free platform is a low-cost alternative that can be used by core facilities and other investigators to reproducibly identify plant and viral proteins interacting with virions.
HostingRepository	PRIDE
AnnounceDate	2018-10-24
AnnouncementXML	Submission_2018-10-24_14:13:03.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Stacy DeBlasio
SpeciesList	scientific name: Nicotiana benthamiana; NCBI TaxID: 4100;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2017-04-19 11:36:52	ID requested
⏵ 1	2018-10-24 14:13:04	announced

DeBlasio SL, Bereman MS, Mahoney J, Thannhauser TW, Gray SM, MacCoss MJ, Cilia Heck M, Evaluation of a Bead-Free Coimmunoprecipitation Technique for Identification of Virus-Host Protein Interactions Using High-Resolution Mass Spectrometry. J Biomol Tech, 28(3):111-121(2017) [pubmed]

curator keyword: Technical

submitter keyword: Luteoviridae, polerovirus, Potato leafroll virus, host-pathogen interactions, phloem-limited, bead-free immunoprecipitation

plant-virus interactome

tandem mass spectrometry, molecular virology

Michelle Cilia
contact affiliation	USDA-ARS, Boyce Thompson Institute, Cornell University
contact email	mlc68@cornell.edu
lab head
Stacy DeBlasio
contact affiliation	USDA-ARS
contact email	sld98@cornell.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD006338
     1. Label: PRIDE project
     2. Name: Evaluation of a bead-free immunoprecipitation technique coupled with tandem mass spectrometry for identification of plant-virus protein interactions (DeBlasio_JBT_2017)