PXD022082

PXD022082 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Novel drought adaptation strategies identified by comparing organelle- and cytoplasmic-enriched protein profiles of two Sorghum bicolor genotypes (RTx430 and BTx642) with differing pre-flowering drought tolerance
Description	Proteomics of organelle and cytoplasmic enriched samples from Sorghum bicolor RTx430 (pre-flowering drought tolerant) and RTx642 (pre-flowering drought sensitive) before and during drought. 3 biological replicates, except BTx642 drought samples, which had 2 biological replicates due to limited sample. Identified multiple protein-level responses in both genotypes, demonstrated that these responses are consistent with the literature, as well as identified multiple RTx430-specific changes that suggest novel drought-tolerance strategies unique to RTx430. Sorghum leaves (both genotypes, +/- drought) were separated into cytosolic and organelle fractions, then digested with trypsin, and analyzed by LC-MS/MS. Data was searched using MaxQuant's Andromeda and a UniProt database. Data was then evaluated for missingness, normalized, and missing values imputed using Bioconductor R package DEP (Zhang et al. 2018).
HostingRepository	MassIVE
AnnounceDate	2022-08-16
AnnouncementXML	Submission_2022-08-16_10:03:21.866.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Matthew Monroe
SpeciesList	scientific name: Sorghum bicolor; common name: sorghum; NCBI TaxID: 4558;
ModificationList	Oxidation
Instrument	Q Exactive Plus

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-10-19 14:10:12	ID requested
⏵ 1	2022-08-16 10:03:22	announced

Publication List

Ogden AJ, Abdali S, Engbrecht KM, Zhou M, Handakumbura PP, Genotype RTx430 Revealed by Subcellular Protein Profiling. Int J Mol Sci, 21(24):(2020) [pubmed]

Ogden AJ, Abdali S, Engbrecht KM, Zhou M, Handakumbura PP, Genotype RTx430 Revealed by Subcellular Protein Profiling. Int J Mol Sci, 21(24):(2020) [pubmed]

Keyword List

submitter keyword: drought, pre-flowering, rubisco, abscisic acid, Flowering Locus C

submitter keyword: drought, pre-flowering, rubisco, abscisic acid, Flowering Locus C

Contact List

Pubudu P. Handakumbara
contact affiliation	Pacific Northwest National Laboratory
contact email	pubudupinipa.handakumbura@pnnl.gov
lab head
Matthew Monroe
contact affiliation	Pacific Northwest National Laboratory
contact email	matthew.monroe@pnnl.gov
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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MassIVE dataset URI

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://massive.ucsd.edu/MSV000086332/