Proteomics

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Toward a comprehensive proteomic draft map of the West Virginia Ramp (Allium tricoccum)


ABSTRACT: Samples of the North American wild ramp (wild leak) Allium tricoccum were harvested during the vegetative and dormant stages of the life cycle. The vegatative plant was cut into root, bulb, stem and leaf sections and homogenized in a bead mill in a solution of 35/35/30 LCMS grade acetonitrile, methanol, and water respectively. Centrifugation at 13,000 x g at 5 minutes was used to separate the soluble metabolome and the solid material (protein, etc.,). The soluble solution was dried by speedvac and resuspended in 5 percent acetonitrile in water for metabolomic analysis on a Q Exactive system using a 20 minute DDA method. Metabolites were analyzed in Compound Discverer 3.1. The same process was performed for dormant ramps with the exception that only bulb and root material could be obtained. The precipitate for all samples was solubilized in 1x S-trap lysis buffer and prepared with the S-Trap mini spin column kits following all vendor protocols, with the exception that reduction and alkylation were not performed. The resulting peptides were quantified and 400ng of material was analyzed using a DDA PASEF method on an EvoSep One system.

INSTRUMENT(S): timsTOF fleX

ORGANISM(S): Allium Tricoccum (ncbitaxon:138334)

SUBMITTER: Benjamin C Orsburn  

PROVIDER: MSV000094686 | MassIVE | Mon May 06 07:08:00 BST 2024

SECONDARY ACCESSION(S): PXD052017

REPOSITORIES: MassIVE

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