PXD059506
PXD059506 is an original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Direct histone proteoform profiling of the unannotated, endangered coral Acropora cervicornis |
| Description | Epigenetic modifications directly regulate the patterns of gene expression by altering DNA accessibility and chromatin structure. A knowledge gap is presented by the need to directly measure these modifications, especially for unannotated organisms with unknown primary histone sequences. In the present work, we developed and applied a novel workflow for identifying and annotating histone proteoforms directly from mass spectrometry-based measurements for the endangered Caribbean coral Acropora cervicornis. Combining high accuracy de novo top-down and bottom-up analysis based on tandem liquid chromatography, trapped ion mobility spectrometry, non-ergodic electron-based fragmentation, and high-resolution mass spectrometry, near complete primary sequence (up to 99%) and over 86 post-translational modification annotations were obtained from pull-down histone fractions. In the absence of reliable genome annotations, H2A, H2B and H4 histone sequences and the annotation of the post-translational modifications of the stressed A. cervicornis coral allow for a better understanding of chromatin remodeling and new strategies for target intervention and restoration of endangered reef corals. |
| HostingRepository | MassIVE |
| AnnounceDate | 2025-07-09 |
| AnnouncementXML | Submission_2025-07-09_07:47:26.938.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Non peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Cassandra Fuller |
| SpeciesList | scientific name: Acropora cervicornis; common name: staghorn coral; NCBI TaxID: 6130; |
| ModificationList | Acetyl; Methyl; Dimethyl; Trimethyl; Oxidation |
| Instrument | maXis II; timsTOF Pro 2 |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|---|---|---|
| 0 | 2025-01-07 06:06:34 | ID requested | |
| ⏵ 1 | 2025-07-09 07:47:27 | announced |
Publication List
| no publication |
Keyword List
| submitter keyword: nLC-TIMS-PASEF-ToF MS/MS, nESI-TIMS-ToF MS/MS, coral, top-down, bottom-up, DatasetType:Proteomics |
Contact List
| Francisco A Fernandez-Lima | |
|---|---|
| contact affiliation | Florida International University |
| contact email | fernandf@fiu.edu |
| lab head | |
| Cassandra Fuller | |
| contact affiliation | Florida International University |
| contact email | cfull014@fiu.edu |
| 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-ftp.ucsd.edu/v06/MSV000096788/ |
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