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Arabidopsis thaliana peptide SP2 and ethyl acetate extraction clean up.

ABSTRACT: The success of bottom-up proteomic analysis frequently depends on the efficient removal of contaminants from protein or peptide samples before LC-MS/MS. For a peptide clean-up workflow, the single-pot solid-phase-enhanced peptide sample preparation on carboxylate-modified paramagnetic beads (termed SP2) was evaluated for sodium dodecyl sulfate or polyethylene glycol removal from Arabidopsis thaliana tryptic peptides. The robust and efficient 40-min SP2 protocol, tested for a 10 ng, 250ng and 10µg peptide sample, was proposed and benchmarked thoroughly against the ethyl acetate extraction protocol. The SP2 protocol on carboxylated magnetic beads proved to be the robust approach even for simultaneous removal of massive sodium dodecyl sulfate (SDS) and polyethylene glycol (PEG) contaminations from AT peptide samples in respect of the LC-MS/MS data outperforming ethyl acetate extraction.

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Arabidopsis Thaliana (mouse-ear Cress)

TISSUE(S): Leaf

SUBMITTER: Petra Martinková

LAB HEAD: Zbynek Zdrahal

PROVIDER: PXD045031 | Pride | 2024-01-03

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	104min-IS_DIA_400-1000_16_overlap_transitions_list.csv	Csv
	10ng_SP2_001PEG_1.raw	Raw
	10ng_SP2_001PEG_2.raw	Raw
	10ng_SP2_001PEG_3.raw	Raw
	10ng_SP2_01PEG_1.raw	Raw

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