PXD036273

PXD036273 is an original dataset announced via ProteomeXchange.

Title	SWATH-MS proteome of Actinobacillus pleuropneumoniae showing differential protein expression due to the ModP and ModQ phasevarions
Description	Actinobacillus pleuropneumoniae is responsible for porcine pleuropneumoniae, a severe respiratory disease that causes major global financial losses to the swine industry every year. Phase variation is the random switching of gene expression, either ON-OFF switching of expression, or the expression of multiple allelic protein variants. A number of bacteria encode cytoplasmic DNA methyltransferases that are phase-variable. This variable methyltransferase expression leads to global gene expression differences mediated by epigenetic mechanisms. These systems are called phasevarions (phase-variable regulons). In all described cases, phasevarions control expression of current and putative vaccine candidates, and influence phenotypes relevant to pathobiology. We have discovered two new phase-variable Type III DNA methyltransferases in A. pleuropneumoniae, which we named modP and modQ. Sequence analysis of multiple strains showed modP was present as four allelic variants, but just a single allelic variant of modQ was present. Phase-variable expression of modP (modP1 or modP2) and modQ leads to differential protein expression. This SWATH-MS dataset demonstrates the resulting changes to protein expression as a result of the of ModP1, ModP2 and ModQ phasevarions. This dataset represents triplicate repeats from strains which express either ModP or ModQ (ON) and strains which do not (OFF).
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:45:49.688.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Nusrat Nahar
SpeciesList	scientific name: Actinobacillus pleuropneumoniae serovar 7 str. AP76; NCBI TaxID: 537457; scientific name: Actinobacillus pleuropneumoniae serovar 3 str. JL03; NCBI TaxID: 434271;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-25 13:33:22	ID requested
1	2023-05-10 08:56:48	announced
⏵ 2	2023-11-14 08:45:54	announced	2023-11-14: Updated project metadata.

Nahar N, Tram G, Jen FE, Phillips ZN, Weinert LA, Boss, é JT, Jabbari JS, Gouil Q, Du MRM, Ritchie ME, Bowden R, Langford PR, Tucker AW, Jennings MP, Turni C, Blackall PJ, Atack JM, Actinobacillus pleuropneumoniae encodes multiple phase-variable DNA methyltransferases that control distinct phasevarions. Nucleic Acids Res, 51(7):3240-3260(2023) [pubmed]

submitter keyword: phasevarions, epigenetics, bacteria,Actinobacillus pleuropneumoniae, methyltransferase

John Atack
contact affiliation	Institute for Glycomics, Griffith University, Gold Coast, Queensland, 4222, Australia
contact email	j.atack@griffith.edu.au
lab head
Nusrat Nahar
contact affiliation	Institute for Glycomics, Griffith University
contact email	nusrat.nahar@griffithuni.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/2023/05/PXD036273

PRIDE project URI

• PRIDE
  1. PXD036273
     1. Label: PRIDE project
     2. Name: SWATH-MS proteome of Actinobacillus pleuropneumoniae showing differential protein expression due to the ModP and ModQ phasevarions