PXD051590
PXD051590 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Proteomic and metabolomic analysis of multifoliolate mutants of Trifolium repens |
| Description | Quadrifoliolate and pentafoliolate mutants of Trifolium repens were collected at Pug Mountain Vineyards in Southern Pennsylvania in the summer of 2023 along with matched trifoliolate plants gathered within the same cubic yard. Stems and leaves were frozen in a dry ice bath and homogenized by beadmill in a solution of methanol, acetonitrile and water (35/35/30). The supernatants were clarified by centrifugation at 13,000 x g for 5 minutes at 4C. The supernatant was removed and dried for metabolomic analysis while the precipitate was dried by speedvac and resuspended in 1x S-Trap lysis buffer. Samples were prepared following vendor instructions using the S-Trap 96-well plate format with the exception that cysteines were not reduced and alkylated. Samples were digested for 2 hours at 47C with a 20 nanograms of trypsin in 100mM TEAB solution. Eluted peptides were dried by SpeedVac and quantified using a colorimetric peptide kit. 400 nanograms of peptides were loaded onto EvoTips and were analyzed using ddaPASEF on a TIMSTOF Flex insturment using a 15cm x 75 um column and the 15SPD and 30SPD methods. Metabolomics was performed on a Q Exactive "Classic" system coupled to an RSLCnano with a 15cm x 2.1mm HyperSil Gold column using a 20min method. Separate runs were performed in triplicate in positive and negative polarities. Proteomic samples were analyzed with FragPipe 21.1 and Metabolomic samples were analyzed in Compound Discoverer 3.3 SP3. |
| HostingRepository | MassIVE |
| AnnounceDate | 2024-04-19 |
| AnnouncementXML | Submission_2024-04-19_17:26:15.960.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | ben |
| SpeciesList | scientific name: Trifolium repens; common name: white clover; NCBI TaxID: 3899; |
| ModificationList | Oxidation |
| Instrument | timsTOF fleX |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2024-04-19 14:52:56 | ID requested | |
| ⏵ 1 | 2024-04-19 17:26:16 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: Trifolium repens, 4 leaf clover, 5 leaf clover, Proteomics and Metabolomics |
Contact List
| Benjamin C Orsburn | |
|---|---|
| contact affiliation | Johns Hopkins |
| contact email | borsbur1@jhmi.edu |
| lab head | |
| ben | |
| contact affiliation | The Johns Hopkins School of Medicine |
| contact email | ben_orsburn3@hotmail.com |
| dataset submitter | |
Full Dataset Link List
| 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/v07/MSV000094570/ |
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