PXD026538

PXD026538 is an original dataset announced via ProteomeXchange.

Title	Quantitative Proteome of enzymatically isolated rumen epithelium in sheep with low or high methane emission.
Description	Ruminant livestock are one of the major contributors to carbon emission contributing the global warming issue. Methane (CH4) produced from enteric microbial fermentation of feed in the reticulo-rumen are known to differ between sheep with different digestive function and fermentation products such as metabolites. However, the molecular mechanism underpinning differences in methane emission remains to be fully elucidated. We extracted a membrane and cytosolic protein fraction of rumen epithelium proteins from both high (H) and low (L) CH4 emitting sheep. Protein abundance differences between the phenotypes were quantified using SWATH-mass spectrometry. We identified 92 proteins annotated as cell surface transporters, of which only solute carrier family (SLC) 40A1 had a greater fold change of protein expression in the high methane emission phenotype. The main difference in protein abundance we found were related to the metabolism of glucose, lactate and processes of cell defence against microbes in the epithelium of sheep in each group. To best of our knowledge, this represents one of the most comprehensive proteomes of ovine rumen epithelium to date.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:39:36.923.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Karthik Shantharam kamath
SpeciesList	scientific name: Ovis aries; NCBI TaxID: 9940;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-07 06:07:38	ID requested
1	2023-03-11 00:54:54	announced
⏵ 2	2023-11-14 08:39:37	announced	2023-11-14: Updated project metadata.

Bond JJ, Donaldson AJ, Woodgate S, Kamath KS, Mckay MJ, Wheeler D, Tucker D, Oddy VH, Quantification of cytosol and membrane proteins in rumen epithelium of sheep with low or high CH4 emission phenotype. PLoS One, 17(10):e0273184(2022) [pubmed]

submitter keyword: Sheep, SWATH-MS, membrane proteome, Rumen epithelium

Jude Bond
contact affiliation	NSW Department of Primary Industries, Extensive Livestock Industry Centre, Trevenna Rd, University of New England, Armidale, NSW, 2351, Australia.
contact email	jude.bond@dpi.nsw.gov.au
lab head
Karthik Shantharam kamath
contact affiliation	Macquarie university
contact email	karthikskamath@gmail.com
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/2023/03/PXD026538

PRIDE project URI

• PRIDE
  1. PXD026538
     1. Label: PRIDE project
     2. Name: Quantitative Proteome of enzymatically isolated rumen epithelium in sheep with low or high methane emission.