MassIVE MSV000096788

Partial Public PXD059506

Direct histone proteoform profiling of the unannotated, endangered coral Acropora cervicornis

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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. [doi:10.25345/C5SB3XB0W] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: nLC-TIMS-PASEF-ToF MS/MS ; nESI-TIMS-ToF MS/MS ; coral ; top-down ; bottom-up ; DatasetType:Proteomics

Contact

Principal Investigators:
(in alphabetical order) 		Francisco A Fernandez-Lima, Florida International University, United States
Submitting User: cfuller
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