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Parallel Reaction Monitoring of 42 peptide pairs with 15N metabolic labeling

ABSTRACT: To examine the properties of 14N and 15N labeled peptides from 15 metabolic labeling samples, we set up targeted quantification using Parallel Reaction Monitoring (PRM) on a high resolution, high accuracy mass spectrometer. We first examined the co-elution of light and heavy peptide forms. Furthermore, we examined the fragment spectra of the light and heavy peptides and compared the pattern of the fragments.

INSTRUMENT(S): Q Exactive HF

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

TISSUE(S): Plant Cell, Whole Body

SUBMITTER: Shouling Xu

LAB HEAD: Shouling Xu

PROVIDER: PXD030112 | Pride | 2022-06-09

REPOSITORIES: Pride

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			Action	DRS
	42_peptide_template.sky	Other
	42_peptide_template.sky.view	Other
	42_peptide_template.skyd	Other
	42_peptide_template.skyl	Other
	AR_42_peptide_pairs_inclusion_list.CSV	Csv

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Publications

Application of Parallel Reaction Monitoring in 15N Labeled Samples for Quantification.

Reyes Andres V AV Shrestha Ruben R Baker Peter R PR Chalkley Robert J RJ Xu Shou-Ling SL

Frontiers in plant science 20220503

Accurate relative quantification is critical in proteomic studies. The incorporation of stable isotope 15N to plant-expressed proteins in vivo is a powerful tool for accurate quantification with a major advantage of reducing preparative and analytical variabilities. However, 15N labeling quantification has several challenges. Less identifications are often observed in the heavy-labeled samples because of incomplete labeling, resulting in missing values in reciprocal ...[more]

PMID: 35592564

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Relative quantification of 15N labeled acinus-2 pinin-1 and 14N labeled Col through Data Dependent Acquisition to obtain peptide information for targeted Parallel Reaction Monitoring experiment

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Changes in Protein Turn-over Rates Regulate Tryptophan and Glucosinolate Biosynthesis, IAA Transport and Photosynthesis in Arabidopsis Growth and Defense Transitions

Project description:Changes in protein synthesis and degradation rates, transcript, protein and phytohormone abundance of 99 targets using qPCR and LC-MS parallel reaction monitoring (PRM) were measured in the transitions between optimal growth conditions (homeostasis), fully induced pattern triggered immunity (PTI) and back in Arabidopsis thaliana, chronologically. Protein turnover rates play an important role in the tryptophan and glucosinolate biosynthesis and photosynthesis associated (PAP) proteins. Most transcripts returned to normal levels 3 to 16 hours post elicitation, while protein levels remained at fully induced PTI levels up to 16 hours into the transitory phase back to optimal growth. Same measurements in the myc234 background revealed an important role of these transcription factors in the immune response including effects on protein turnover rates.

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Quantitative O-GlcNAc analysis between wild type and sec-5 using SILIA (F2 R1 on QE-HF)

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Open-pFind enables precise, comprehensive and rapid peptide identification in shotgun proteomics, part 2

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