PXD007943-1

PXD007943 is an original dataset announced via ProteomeXchange.

Title	Giardia duodenalis Assemblage B Proteome
Description	Giardia duodenalis a species-complex of common gastrointestinal protists of major medical and veterinary importance. This complex is currently subclassifed as ‘Assemblages’, with Assemblage A and B infective to humans. To date, post-genomic proteomics are derived exclusively from Assemblage A, biasing understanding of these parasites’ biology. This bias is particularly notable, as Assemble B is the more prevalent cause of human infections. To address this gap, we quantitatively analysed proteomes of the intestinal ‘trophozoite’ stage of three Assemblage B isolates, including the genome reference (GS/M) and two clinical isolates (BRIS/91/HEPU/1279 and BRIS/92/HEPU/1487), during in vitro axenic culture. We used spectrum-to-peptide matching metrics to infer currently unknown intra-assemblage variation. We identified and quantified over 3000 proteins in the GS isolate, but demonstrated significant isolate-dependent losses in peptide and protein identifications in non-reference isolates, suggesting significant intra-assemblage variation. We also explore differential protein expression between in vitro cultured subpopulations enriched for dividing relative to feeding cells. This data is an important proteomic baseline for Assemblage B, and highlights unique differences heretofore avoided in post-genomic Giardia proteomics.
HostingRepository	PRIDE
AnnounceDate	2018-07-03
AnnouncementXML	Submission_2018-07-03_07:46:52.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Samantha Emery
SpeciesList	scientific name: Giardia intestinalis assemblage B; NCBI TaxID: 1394984;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2017-10-11 04:03:44	ID requested
⏵ 1	2018-07-03 07:46:52	announced
2	2019-03-11 14:36:00	announced	Updated publication reference for DOI(s): https://doi.org/10.1016/j.ijpara.2018.05.003.
3	2023-11-14 08:49:30	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Protozoa, Giardia, Giardia duodenalis, LC-MS/MS, Label-Free, Bottom-up Proteomics, Orbitrap

Aaron Jex
contact affiliation	Population Health and Immunity Division, Walter and Eliza Hall Institute of Medical Research, Melbourne, VIC, Australia Faculty of Veterinary and Agricultural Sciences, The University of Melbourne, Melbourne, VIC, Australia
contact email	jex.a@wehi.edu.au
lab head
Samantha Emery
contact affiliation	Population Health and Immunity, Walter and Eliza Hall Institute of Medical Research
contact email	emery.s@wehi.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/2018/07/PXD007943

PRIDE project URI

• PRIDE
  1. PXD007943
     1. Label: PRIDE project
     2. Name: Giardia duodenalis Assemblage B Proteome