Neag E et al. (2023), Mass spectrometry dataset of LC-MS lipidomics a...

XB-ART-59908

Data Brief 2023 Aug 01;49:109313. doi: 10.1016/j.dib.2023.109313.

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Mass spectrometry dataset of LC-MS lipidomics analysis of Xenopus laevis optic nerve.

Neag E , Moceri I , Harvey F , Udvadia AJ , Bhattacharya SK , Watson FL .

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CNS injuries of the anuran amphibian, Xenopus laevis, are uniquely suited for studying the molecular compositions of neuronal regeneration of retinal ganglion cells (RGC) due to a functional recovery of optic axons disparate to adult mammalian analogues. RGCs and their optic nerve axons undergo irreversible neurodegeneration in glaucoma and associated optic neuropathies, resulting in blindness in mammals. Conversely, Xenopus demonstrates RGC lifetime-spanning regenerative capabilities after optic nerve crush [1], inciting opportunities to compare de novo regeneration and develop efficient pharmaceutical approaches for vision restoration. Studies revealing lipidome alterations during optic nerve regeneration are sparse and could serve as a solid foundation for these underlying molecular changes. We profile the lipid changes in a transgenic line of 1 year old Xenopus laevis Tg(islet2b:gfp) frogs that were either left untreated (naïve) or had a monocular surgery of either a left optic crush injury (crush) or sham surgery (sham). Matching controls of uninjured right optic nerves were also collected (control). Tg(islet2b:gfp) frogs were allowed to recover for 7,12,18, and 27 days post optic nerve crush. Following euthanasia, the optic nerves were collected for lipidomic analysis. A modified Bligh and Dyer method [2] was used for lipid extraction, followed by untargeted mass spectrometry lipid profiling with a Q Exactive Orbitrap Mass Spectrometer coupled with a Vanquish Horizon Binary UHPLC LC-MS system (LC MS-MS). The raw scans were analyzed and quantified with LipidSearch 5.0 and the statistical analysis was conducted through Metaboanalyst 5.0. This data is available at Metabolomics Workbench, study ID [ST002414].

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Species referenced: Xenopus laevis
GO keywords: axon regeneration

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References [+] :

Arcuri, Lipidomics dataset of Danio rerio optic nerve regeneration model. 2021, Pubmed

	Fig. 1. Graphical abstract illustrating the experimental workflow. Schematic depicting from optic nerve sample collection to data acquisition and interpretation. Created with BioRender.com.
	Fig. 2. Top twenty-five important lipid features identified by partial least square-discriminant variable importance in projection (VIP) scores. VIP scores in regeneration groups (7-, 12-, 18-, and 27-days post injury) compared to sham controls. The colored boxes on the right indicate the relative concentrations of the corresponding lipid species.
	Fig. 3. Heatmap showing lipid abundances of the top fifty lipid species. Heatmaps showing post optic nerve crush (7-, 12-, 18-, and 27-days post injury) compared to sham controls. Euclidean distances and ward clustering were used.
	Fig. 4. Graphical illustration showing the regeneration timeline for axonal regrowth. The four key phases of regeneration in one-year old adult frogs occurs at 7, 12, 18, and 27 – days post injury (dpi) (A, B). Representative image shows stacked confocal image from adult Xenopus frogs [Tg(Islet2b:GFP)] expressing GFP (green) and post-injury rhodamine dextran labeled axons (red) (C). At 11 dpi, RGC axon regrowth approaches the optic chiasm (double arrow) and has reached the chiasm at 12dpi (not shown). A, B created with BioRender.com.