MassIVE MSV000098649

Partial Public PXD066617

MAX a label-free proteomics study of the rat dentate gyrus and serum in exercise and middle age

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Description

Label-free proteomics study of middle age and 8 weeks of voluntary wheel-running exercise in two cohorts of male Sprague-Dawley rats. The 2021_11_18 dataset contains n=80 dentate gyrus samples from n=40 rats (n=10 per group; four experimental groups). Each rat produced one dorsal and one ventral dentate section. Pooled QC samples are also included. Samples were analyzed on a Bruker timsTOF Pro in DDA mode connected to an EvoSep One running an 88-minute gradient with the 15 SPD method. Samples were sonicated in 8M Urea + 1M TEAB, reduced with DTT and alkylated with IAA, digested with Promega Seq-grade Porcine Trypsin, and desalted with ZipTips. The 2023_02_07 dataset contains serum n=40 samples from the same rats as in 2021_11_18. Pooled QC samples are also included and were used for DDA-based spectral library generation. Sera were depleted of serum albumin, transferrin, and immunoglobulin G (IgG) with a 4.6x100 mm Mouse-3 Multi Affinity Removal Column (Agilent) for high-performance liquid chromatography (HPLC). The column was connected to an Akta Purifier (GE Healthcare/Amersham Biosciences) HPLC system, running with Unicorn software (version 5.31). Sera were analyzed on a Bruker timsTOF Pro in DIA mode connected to an EvoSep One running a 44-minute gradient with the 30 SPD method. Depleted samples were solubilized in 0.5% Rapigest, reduced with DTT and alkylated with IAA, digested with Promega Seq-grade Porcine Trypsin, and desalted with ZipTips. The 2023_05_17 dataset contains n=42 dentate gyrus samples from a second cohort of rats (3 experimental groups). Each rat produced one whole dentate gyrus sample. Pooled QC samples are also included and were used for DDA-based spectral library generation. Samples were analyzed on a Bruker timsTOF Pro in DIA mode connected to an EvoSep One running an 88-minute gradient with the 15 SPD method. Samples were sonicated in 8M Urea + 1M TEAB, reduced with DTT and alkylated with IAA, digested with Promega Seq-grade Porcine Trypsin, and desalted with ZipTips. [doi:10.25345/C5542JN3S] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: aging ; exercise ; hippocampus ; dentate gyrus ; serum ; LFQ ; rodent ; middle age ; DatasetType:Proteomics

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Principal Investigators:
(in alphabetical order) 		Yvonne Nolan, University College Cork, Ireland
Submitting User: SebastianDH
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