PXD001272

PXD001272 is an original dataset announced via ProteomeXchange.

Title	Giardia duodenalis Assemblage A Quantitative Proteomics
Description	Giardia duodenalis is a protozoan parasite of a wide range of vertebrates and one of the leading causes of gastroenteritis worldwide. G. duodenalis is a species complex of 8 assemblages with the zoonotic assemblage A as one of two discrete subtypes that is infective for humans. With increasing genomic and transcriptomic data now publicly available through the centralised giardiaDB.org, we have quantitatively analysed the proteomes of 8 G. duodenalis assemblage A strains (7 A1 and 1 A2) to provide a comprehensive proteomic baseline to complement these studies. Protein analysis identified a non-redundant total of 1220 proteins with an average of 764 proteins in each strain. At least 10% of all proteins identified were from the 4 protein families in the G. duodenalis variable genome, and substantial differences in number and abundance profiles in the Variable Surface Protein (VSP) family was observed. We also searched the 8 strains against both assemblage A genomes (subassemblage A1 and A2 genomes) and showed losses in protein identifications, especially for protein identifications associated with Giardia variable gene families which are sub-assemblage specific. We observed two expression profiles of VSPs within Giardia, which was independent to host origin, subassemblage, geographic origin and introduction to axenic culture and may indicate variation in surface antigen switching events and population heterogeneity. We hypothesise this variation may be related to karotype and chromosomal variation, which would indicate an assemblage-independent mechanism of variation in G. duodenalis.
HostingRepository	PRIDE
AnnounceDate	2015-02-26
AnnouncementXML	Submission_2015-04-15_03:08:06.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Samantha Emery
SpeciesList	scientific name: Giardia intestinalis assemblage A; NCBI TaxID: 941442;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ

Revision	Datetime	Status	ChangeLog Entry
0	2014-08-28 05:12:04	ID requested
1	2015-02-26 02:06:23	announced
⏵ 2	2015-04-15 03:08:07	announced	Updated publication reference for PubMed record(s): 25728068.

Emery SJ, Lacey E, Haynes PA, Quantitative proteomic analysis of Giardia duodenalis assemblage A: A baseline for host, assemblage, and isolate variation. Proteomics, 15(13):2281-5(2015) [pubmed]

curator keyword: Biological

submitter keyword: assemblage A, Giardia duodenalis, label-free quantitative shotgun proteomics, Variant Surface Protein, variable genome, parasite proteomics

Professor Paul A Haynes
contact affiliation	Macquarie University, Faculty of Science, Department of Chemistry and Biomolecular Sciences
contact email	paul.haynes@mq.edu.au
lab head
Samantha Emery
contact affiliation	Chemistry and Biomolecular Sciences
contact email	samantha.emery@mq.edu.au
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/2015/02/PXD001272

PRIDE project URI

• PRIDE
  1. PXD001272
     1. Label: PRIDE project
     2. Name: Giardia duodenalis Assemblage A Quantitative Proteomics