MassIVE MSV000087506

Partial Public PXD026250

Data Independent Acquisition Mass Spectrometry of the Human Lens Enhances Spatiotemporal Measurement of Fiber Cell Aging

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Description

Comparison of DIA and DDA of 18 year old human lens treated with solubility fraction. OC, Cortex; ON, Outer Nucleus; IN, Inner Nucleus. 3 technical replicates included. Full details available at biorxiv preprint https://doi.org/10.1101/2021.05.13.444062. Abstract: The ocular lens proteome undergoes post-translational and progressive degradation as fiber cells age. The oldest fiber cells and the proteins therein are present at birth and are retained through death. Transparency of the lens is maintained in part by the high abundance crystallin family proteins (up to 300 mg/mL), which establishes a high dynamic range of protein abundance. As a result, previous Data Dependent Analysis (DDA) measurements of the lens proteome are less equipped to identify the lowest abundance proteins. In an attempt to probe more deeply into the lens proteome, we measured the insoluble lens proteome of an 18-year-old human with DDA and newer Data Independent Analysis (DIA) methods. By applying library free DIA search methods, 4,564 protein groups, 48,474 peptides and 5,577 deamidation sites were detected: significantly outperforming the quantity of identifications in using DDA and Pan-Human DIA library searches. Finally, by segmenting the lens into multiple fiber cell-age related regions, we uncovered cell-age resolved changes in proteome composition and putative function. [doi:10.25345/C5VJ8T] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: lens, aging, DIA, DDA, DIA-NN

Contact

Principal Investigators:
(in alphabetical order) 		Kevin Schey, Vanderbilt University, USA
Lee Cantrell, Vanderbilt University, USA
Submitting User: cantrls1

Publications

Lee S Cantrell , Kevin L Schey.
Data-Independent Acquisition Mass Spectrometry of the Human Lens Enhances Spatiotemporal Measurement of Fiber Cell Aging.
J Am Soc Mass Spectrom. 2021 Dec 1;32(12):2755-2765. doi: 10.1021/jasms.1c00193. Epub 2021 Oct 27.

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