Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

SpxA1 and SpxA2 Function as a Stoichiometry-Dependent Regulatory Rheostat Governing Virulence Gene Expression in Group A Streptococcus.

bioRxiv : the preprint server for biology·2026
Same author

Regulation of EIF5A and hypusination by p53 determines colorectal cancer cell fitness.

Cancer letters·2026
Same author

<i>Staphylococcus aureus</i> ZigA is implicated in survival in zinc-deplete and genotoxic environments.

Microbiology spectrum·2026
Same author

Contributions of conserved and species-specific CagX (VirB9) domains to the assembly and function of the <i>Helicobacter pylori</i> Cag type IV secretion system.

Infection and immunity·2026
Same author

Multiple TonB-dependent transport systems in <i>Helicobacter pylori</i>.

Infection and immunity·2026
Same author

Mammary Fibroblasts Secrete Damage Associated Molecular Patterns Through Extracellular Vesicles in Response to Ionizing Radiation.

Journal of extracellular biology·2026

Related Experiment Video

Updated: Sep 19, 2025

Assessment of Zebrafish Lens Nucleus Localization and Sutural Integrity
07:16

Assessment of Zebrafish Lens Nucleus Localization and Sutural Integrity

Published on: May 6, 2019

8.7K

Data-Independent Acquisition Parallel Accumulation-Serial Fragmentation (diaPASEF) Analysis of the Separated

Sarah R Zelle1, W Hayes McDonald2, Kristie L Rose2

  • 1Chemical and Physical Biology Program, Vanderbilt University, Nashville, Tennessee 37212, United States.

Journal of the American Society for Mass Spectrometry
|June 9, 2025
PubMed
Summary

This study enhances zebrafish lens proteomic analysis by separating cortical and nuclear regions. Data-independent acquisition parallel accumulation-serial fragmentation (diaPASEF) significantly increased protein identifications, creating the most comprehensive dataset to date.

Keywords:
DIAagingdiaPASEFlensproteomicszebrafish

More Related Videos

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis
07:40

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis

Published on: May 16, 2025

476
Author Spotlight: Strategies for Mounting Zebrafish Embryos for High-Resolution Multiview Light-Sheet Microscopy &#8212; Techniques for Imaging and Image Reconstruction
08:33

Author Spotlight: Strategies for Mounting Zebrafish Embryos for High-Resolution Multiview Light-Sheet Microscopy — Techniques for Imaging and Image Reconstruction

Published on: July 19, 2024

942

Related Experiment Videos

Last Updated: Sep 19, 2025

Assessment of Zebrafish Lens Nucleus Localization and Sutural Integrity
07:16

Assessment of Zebrafish Lens Nucleus Localization and Sutural Integrity

Published on: May 6, 2019

8.7K
Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis
07:40

Spatially Compact Arrangement of Larval Zebrafish Sections for Spatial Transcriptomic Analysis

Published on: May 16, 2025

476
Author Spotlight: Strategies for Mounting Zebrafish Embryos for High-Resolution Multiview Light-Sheet Microscopy &#8212; Techniques for Imaging and Image Reconstruction
08:33

Author Spotlight: Strategies for Mounting Zebrafish Embryos for High-Resolution Multiview Light-Sheet Microscopy — Techniques for Imaging and Image Reconstruction

Published on: July 19, 2024

942

Area of Science:

  • Proteomics
  • Ocular Biology
  • Biochemistry

Background:

  • Ocular lens fiber cells differentiate and degrade organelles to minimize light scattering.
  • This process creates a gradient of cell age from the periphery (cortex) to the center (nucleus).
  • Studying protein aging requires separating these distinct lens regions.

Purpose of the Study:

  • To comprehensively analyze the zebrafish lens proteome using advanced mass spectrometry.
  • To compare the efficacy of data-independent acquisition parallel accumulation-serial fragmentation (diaPASEF) with standard data-independent acquisition (DIA) methods.
  • To generate the most extensive proteomic dataset of the zebrafish lens to date.

Main Methods:

  • Zebrafish lenses were separated into cortical and nuclear regions.
  • Proteomic analysis was performed using diaPASEF on a timsTOF HT instrument.
  • Results were compared to standard DIA on an Orbitrap Exploris 480 mass spectrometer.

Main Results:

  • diaPASEF, with added ion mobility separation, increased peptide and protein group identifications by over 200% compared to Orbitrap DIA.
  • Identified 13,721 unique peptides (1,537 protein groups) in the zebrafish lens cortex.
  • Identified 11,996 unique peptides (1,389 protein groups) in the zebrafish lens nucleus.

Conclusions:

  • The combination of regional separation and diaPASEF provides a significantly more comprehensive proteomic analysis of the zebrafish lens.
  • This methodology yields the most extensive zebrafish lens proteomic dataset currently available.
  • This approach is valuable for studying age-related changes and other biological processes in the ocular lens.