Summary of Study ST002414

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR001554. The data can be accessed directly via it's Project DOI: 10.21228/M8TM6T This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.

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Study IDST002414
Study TitleMass spectrometry dataset of LC-MS Lipidomics Analysis of Xenopus Laevis Optic Nerve
Study SummaryCNS injuries of the anuran amphibian, Xenopus laevis, are uniquely befitted 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, 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 [PMID: 13671378] was used for lipid extraction, followed by untargeted mass spectrometry lipid profiling with a Q-Exactive Orbitrap Liquid Chromatography-Mass Spectrometer (LC MS-MS) coupled with Vanquish Horizon Binary UHPLC LC-MS system.
Institute
University of Miami
Last NameBhattacharya
First NameSanjoy
Address1638 NW 10th Avenue, Room 706-A, Miami, FL 33136
Emailsbhattacharya@med.miami.edu
Phone3054824103
Submit Date2022-12-13
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2023-01-04
Release Version1
Sanjoy Bhattacharya Sanjoy Bhattacharya
https://dx.doi.org/10.21228/M8TM6T
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Factors:

Subject type: Other organism; Subject species: Xenopus laevis (Factor headings shown in green)

mb_sample_id local_sample_id Factor
SA241950CTL_R-ON_18_dpi_B2Control
SA241951CTL_R-ON_18_dpi_B1Control
SA241952CTL_R-ON_18_dpi_B3Control
SA241953CTL_R-ON_18_dpi_C1Control
SA241954CTL_R-ON_18_dpi_C2Control
SA241955CTL_R-ON_18_dpi_A3Control
SA241956CTL_R-ON_18_dpi_A1Control
SA241957CTL_R-ON_12_dpi_C1Control
SA241958CTL_R-ON_12_dpi_C2Control
SA241959CTL_R-ON_12_dpi_C3Control
SA241960CTL_R-ON_18_dpi_B4Control
SA241961CTL_R-ON_18_dpi_C3Control
SA241962CTL_R-ON_18_dpi_D1Control
SA241963CTL_R-ON_27_dpi_C1Control
SA241964CTL_R-ON_27_dpi_C2Control
SA241965CTL_R-ON_27_dpi_C3Control
SA241966CTL_R-ON_27_dpi_D1Control
SA241967CTL_R-ON_27_dpi_B3Control
SA241968CTL_R-ON_27_dpi_B2Control
SA241969CTL_R-ON_27_dpi_A1Control
SA241970CTL_R-ON_27_dpi_A2Control
SA241971CTL_R-ON_27_dpi_A3Control
SA241972CTL_R-ON_27_dpi_B1Control
SA241973CTL_R-ON_12_dpi_B3Control
SA241974CTL_R-ON_18_dpi_A2Control
SA241975CTL_R-ON_7_dpi_B1Control
SA241976CTL_R-ON_7_dpi_A2Control
SA241977CTL_R-ON_7_dpi_B2Control
SA241978CTL_R-ON_7_dpi_B3Control
SA241979CTL_R-ON_12_dpi_B2Control
SA241980CTL_R-ON_7_dpi_A1Control
SA241981CTL_R-ON_7_dpi_A3Control
SA241982CTL_R-ON_12_dpi_A3Control
SA241983CTL_R-ON_12_dpi_A2Control
SA241984CTL_R-ON_12_dpi_B1Control
SA241985CX_L-ON_27_dpi_A2Crush
SA241986CX_L-ON_27_dpi_C1Crush
SA241987CX L-ON_27_dpi_B3Crush
SA241988CX_L-ON_27_dpi_A3Crush
SA241989CX_L-ON_27_dpi_C2Crush
SA241990CX_L-ON_27_dpi_B1Crush
SA241991CX_L-ON_27_dpi_D1Crush
SA241992CX_L-ON_7_dpi_B1Crush
SA241993CX_L-ON_7_dpi_B3Crush
SA241994CX_L-ON_7_dpi_A3Crush
SA241995CX_L-ON_27_dpi_A1Crush
SA241996CX_L-ON_7_dpi_B2Crush
SA241997CX_L-ON_7_dpi_A2Crush
SA241998CX_L-ON_27_dpi_C3Crush
SA241999CX_L-ON_27_dpi_B2Crush
SA242000CX_L-ON_18_dpi_B2Crush
SA242001CX_L-ON_18_dpi_B3Crush
SA242002CX_L-ON_18_dpi_C1Crush
SA242003CX_L-ON_18_dpi_C2Crush
SA242004CX_L-ON_18_dpi_B1Crush
SA242005CX_L-ON_12_dpi_A1Crush
SA242006CX_L-ON_18_dpi_B4Crush
SA242007CX_L-ON_18_dpi_A1Crush
SA242008CX_L-ON_18_dpi_A2Crush
SA242009CX_L-ON_18_dpi_C3Crush
SA242010CX_L-ON_18_dpi_A3Crush
SA242011CX_L-ON_12_dpi_B1Crush
SA242012CX_L-ON_12_dpi_A3Crush
SA242013CX_L-ON_12_dpi_A2Crush
SA242014CX_L-ON_18_dpi_D1Crush
SA242015CX_L-ON_12_dpi_B3Crush
SA242016CX_L-ON_12_dpi_B2Crush
SA242017CX_L-ON_12_dpi_C3Crush
SA242018CX_L-ON_12_dpi_C2Crush
SA242019CX_L-ON_7_dpi_A1Crush
SA242020CX_L-ON_12_dpi_C1Crush
SA242021CTL_R-ON_Naïve_B1Naïve
SA242022CTL_R-ON_Naïve_B2Naïve
SA242023CTL_R-ON_Naïve_A2Naïve
SA242024CTL_R-ON_Naïve_B3Naïve
SA242025CX_L-ON_Naïve_A3Naïve
SA242026CTL_R-ON_Naïve_A1Naïve
SA242027CX_L-ON_Naïve_A1Naïve
SA242028CX_L-ON_Naïve_A2Naïve
SA242029CX_L-ON_Naïve_B1Naïve
SA242030CX_L-ON_Naïve_B3Naïve
SA242031Sham_R-ON_27_dpi_A3Sham
SA242032L-ON_Sham_18_dpiSham
SA242033Sham_L-ON_27_dpi_A3Sham
SA242034R-ON_Sham_18_dpiSham
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