PXD004675

PXD004675 is an original dataset announced via ProteomeXchange.

Title	Switchgrass drought-induced leaf proteomics analysis
Description	Switchgrass (Panicum virgatum) is a perennial crop producing deep roots thus highly tolerant to soil water deficit conditions. However, seedling establishment in field is very susceptible to prolonged and periodic drought stress. In this study, a “sandwich” system simulating a gradual water deletion process was developed. Switchgrass seedlings were subjected to a 20-day gradual drought treatment process when soil water tension was increased to 0.05 MPa (moderate drought stress) and leaf physiological properties had expressed significant alteration. Drought-induced changes in leaf proteomes were identified using the relative and absolute quantitation (iTRAQ) labeling method followed by nano-scale liquid chromatography mass spectrometry (nano-LC-MS/MS) analysis. Additionally, total leaf proteins were processed using a combinatorial library of peptide ligands to enrich for lower abundance proteins. Both total proteins and those enriched samples were analyzed to increase the coverage of the quantitative proteomics analysis. A total of 7,006 leaf proteins were identified, and 257 (4% of the leaf proteome) expressed a significant difference (P < 0.05, fold change < 0.6 or > 1.7) from the non-treated control to drought-treated conditions. Results from this study, in addition to revealing molecular responses to drought stress, provide a large number of proteins (candidate genes) that can be employed to improve switchgrass seedling growth and establishment under soil drought condition.
HostingRepository	PRIDE
AnnounceDate	2016-08-09
AnnouncementXML	Submission_2016-08-09_02:30:32.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD004675
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ted Thannhauser
SpeciesList	scientific name: Panicum virgatum (Switchgrass); NCBI TaxID: 38727;
ModificationList	Methylthio; iTRAQ8plex; Oxidation
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2016-07-28 05:52:00	ID requested
⏵ 1	2016-08-09 02:30:33	announced

Ye Z, Sangireddy S, Okekeogbu I, Zhou S, Yu CL, Hui D, Howe KJ, Fish T, Thannhauser TW, Drought-Induced Leaf Proteome Changes in Switchgrass Seedlings. Int J Mol Sci, 17(8):(2016) [pubmed]

curator keyword: Biological

submitter keyword: Eight-Plex-ITRAQ

ProteoMiner

drought tolerance

Ted Thannhauser
contact affiliation	US Department of Agriculture, Agricultural Research Service Robert W. Holley Center
contact email	tt34@cornell.edu
lab head
Ted Thannhauser
contact affiliation	USDA-ARS
contact email	tt34@cornell.edu
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/2016/08/PXD004675

PRIDE project URI

• PRIDE
  1. PXD004675
     1. Label: PRIDE project
     2. Name: Switchgrass drought-induced leaf proteomics analysis