PXD006072-1

PXD006072 is an original dataset announced via ProteomeXchange.

Title	Varroa destructor LC-MSMS crossing developmental stages and sexes
Description	Varroa destructor is one of the most prevalent and economically damaging honey bee pests worldwide, weakening colonies by simultaneously parasitizing and transmitting damaging viruses. Despite these impacts on honey bee health, surprisingly little is known about its fundamental molecular biology. Here we present a high-resolution V. destructor protein atlas crossing all major developmental stages (egg, protonymph, deutonymph and adult) for both male and female mites as a web-based interactive tool. In a proteogenomic effort, we identified 1,464 unique peptides corresponding to 419 proteins which were previously unannotated and we included these in all subsequent analyses. In order to use mass spectrometry-based peptide sequencing to augment the genome annotation of non-model species, we analyzed their amino acid and nucleotide composition as well as orthology to other species to suggest reasons why they may have been missed initially. Using label-free quantitative proteomics, we found that 1,433 proteins were differentially regulated across developmental stages, including proteins belonging to deformed wing virus and V. destructor virus. One other virus – the bee macula-like virus – was also detected, along with the protein generated by its short 3’ overlapping reading frame. In addition, we found that 101 proteins are sexually regulated and functional enrichment analysis suggests how they may contribute to sex-specific phenotypes and behaviour. Overall, this work provides a first of its kind interrogation of the patterns of gene expression that govern the Varroa life cycle and the tools we have developed will support further research on this threatening honey bee pest.
HostingRepository	PRIDE
AnnounceDate	2017-09-06
AnnouncementXML	Submission_2017-09-05_23:55:43.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Alison McAfee
SpeciesList	scientific name: Varroa destructor; NCBI TaxID: 109461;
ModificationList	monohydroxylated residue; acetylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Bruker Daltonics micrOTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2017-03-10 06:25:04	ID requested
⏵ 1	2017-09-05 23:55:44	announced

McAfee A, Chan QWT, Evans J, Foster LJ, protein atlas reveals molecular underpinnings of developmental transitions and sexual differentiation. Mol Cell Proteomics, 16(12):2125-2137(2017) [pubmed]

curator keyword: Biological

submitter keyword: Varroa destructor, LC-MSMS, development, protein atlas

Dr. Leonard Foster
contact affiliation	Department of Biochemistry & Molecular Biology, Michael Smith Laboratories, University of British Columbia, 2125 East Mall, Vancouver, British Columbia, Canada V6T 1Z4
contact email	foster@chibi.ubc.ca
lab head
Alison McAfee
contact affiliation	UBC
contact email	alison.mcafee@alumni.ubc.ca
dataset submitter

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/2017/09/PXD006072

PRIDE project URI

• PRIDE
  1. PXD006072
     1. Label: PRIDE project
     2. Name: Varroa destructor LC-MSMS crossing developmental stages and sexes