Jove
Visualize
Contact Us

Related Concept Videos

Habitat Fragmentation02:31

Habitat Fragmentation

21.2K
Habitat fragmentation describes the division of a more extensive, continuous habitat into smaller, discontinuous areas. Human activities such as land conversion, as well as slower geological processes leading to changes in the physical environment, are the two leading causes of habitat fragmentation. The fragmentation process typically follows the same steps: perforation, dissection, fragmentation, shrinkage, and attrition.
21.2K
Mass Spectrometry: Alkene Fragmentation00:59

Mass Spectrometry: Alkene Fragmentation

3.6K
Alkenes lose one electron from the unsaturated π bond upon ionization and form stable molecular ions. Further fragmentation of alkenes occurs through three different reaction pathways. The most prominent fragmentation is the cleavage at the allylic position. The resultant allylic carbocation is resonance stabilized. In the mass spectra of terminal alkenes, this fragment appears at a mass-to-charge ratio of 41. In the internal alkenes, where there are two choices of allylic cleavage, the...
3.6K
Mass Spectrometry: Cycloalkane Fragmentation01:05

Mass Spectrometry: Cycloalkane Fragmentation

2.2K
In mass spectrometry, cycloalkanes exhibit distinct fragmentation patterns due to the inherent stability of their molecular ions compared to linear or branched alkanes. The ring structure of cycloalkanes provides additional stability to the molecular ions, often resulting in prominent ion peaks in the mass spectrum.
For example, cyclohexane molecular ions have a mass-to-charge ratio (m/z) of 84, which tends to produce a stronger signal than linear alkanes like hexane. This stability comes from...
2.2K
Mass Spectrometry: Cycloalkene Fragmentation00:54

Mass Spectrometry: Cycloalkene Fragmentation

1.5K
The molecular ions of cycloalkenes undergo fragmentation via a retro-Diels–Alder reaction.
1.5K
Mass Spectrometry: Alkyne Fragmentation00:53

Mass Spectrometry: Alkyne Fragmentation

2.1K
The fragmentation of alkynes preferentially occurs at the carbon–carbon bond between the α and β carbon of the alkyne bond to generate a 3-propynyl cation (or propargyl cation). In terminal alkynes, there is the only type of fragmentation that yields the 3-propynyl cation. The unsubstituted 3-propynyl cation exhibits a peak at a mass-to-charge ratio of 39. In internal alkynes, the 3-propynyl cation is substituted. For example, 2-pentyne fragments into methyl-substituted 3-propynyl cation,...
2.1K
Mass Spectrometry: Alcohol Fragmentation01:03

Mass Spectrometry: Alcohol Fragmentation

4.4K
Alcohols (R-OH) ionize to lose one non-bonded electron from the oxygen atom, forming molecular ions. Due to their tendency to fragment rapidly, the intensity of the molecular ion peak in the mass spectrum is weak or sometimes absent. The fragmentation patterns for alcohols occur in two ways, i.e. ⍺-cleavage and dehydration. During ⍺-cleavage, the bond at the ⍺-position adjacent to the hydroxyl group cleaves to give a resonance-stabilized cation and a radical. However, intramolecular...
4.4K

You might also read

Related Articles

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

Sort by
Same author

Bifunctional Monosaccharides Preferentially Localize to Nuclear Subcompartments.

Chembiochem : a European journal of chemical biology·2026
Same author

Plasma proteomics stratification identifies phospholamban R14del carriers at risk for disease progression.

Cardiovascular research·2026
Same author

Bifunctional Lipid-Protein Cross-linking Efficiency and Reaction Products.

Journal of the American Chemical Society·2026
Same author

Absolute quantification of fluorescent protein fusions by mass spectrometry.

Protein science : a publication of the Protein Society·2026
Same author

Visualizing suborganellar lipid distribution using correlative light and electron microscopy.

Nature cell biology·2026
Same author

Topological Data Analysis for Unsupervised Feature Selection in Large Scale Spatial Omics Data Sets.

Bulletin of mathematical biology·2026
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 Experiment Video

Updated: Jan 20, 2026

Shotgun Lipidomics of Rodent Tissues
11:46

Shotgun Lipidomics of Rodent Tissues

Published on: November 18, 2022

2.6K

Quantitative Fragmentation Model for Bottom-Up Shotgun Lipidomics.

Kai Schuhmann1, HongKee Moon1, Henrik Thomas1

  • 1Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstr. 108 , 01307 Dresden , Germany.

Analytical Chemistry
|August 24, 2019
PubMed
Summary

This study introduces a new method for accurate glycerophospholipid quantification in shotgun lipidomics. The LipidXte software harmonizes fatty acid fragments for unbiased molar quantification, improving lipid analysis.

More Related Videos

Covalent Fragment Screening Using the Quantitative Irreversible Tethering Assay
06:17

Covalent Fragment Screening Using the Quantitative Irreversible Tethering Assay

Published on: February 28, 2025

1.2K
Lipidomics and Transcriptomics in Neurological Diseases
09:58

Lipidomics and Transcriptomics in Neurological Diseases

Published on: March 18, 2022

3.9K

Related Experiment Videos

Last Updated: Jan 20, 2026

Shotgun Lipidomics of Rodent Tissues
11:46

Shotgun Lipidomics of Rodent Tissues

Published on: November 18, 2022

2.6K
Covalent Fragment Screening Using the Quantitative Irreversible Tethering Assay
06:17

Covalent Fragment Screening Using the Quantitative Irreversible Tethering Assay

Published on: February 28, 2025

1.2K
Lipidomics and Transcriptomics in Neurological Diseases
09:58

Lipidomics and Transcriptomics in Neurological Diseases

Published on: March 18, 2022

3.9K

Area of Science:

  • Analytical Chemistry
  • Biochemistry
  • Mass Spectrometry

Background:

  • Quantitative bottom-up shotgun lipidomics relies on specific fragment ions for accurate analyte and standard detection.
  • Glycerophospholipid quantification typically uses fatty acid carboxylate fragments, but variations in fatty acid structure can lead to quantification errors.
  • Existing methods struggle with accurate quantification when internal standards have similar but not identical fatty acid moieties.

Purpose of the Study:

  • To develop a universal fragmentation model for harmonizing glycerophospholipid quantification.
  • To create an open-source software solution (LipidXte) for post-acquisition data adjustment.
  • To enable unbiased absolute molar quantification of glycerophospholipid species.

Main Methods:

  • Developed a generic and portable fragmentation model for tandem mass spectrometry data.
  • Implemented the model in the open-source LipidXte software.
  • Harmonized abundances of carboxylate anion fragments from fatty acid moieties with varying chain lengths, double bonds, and positional isomers.

Main Results:

  • The fragmentation model successfully harmonizes carboxylate anion fragment abundances.
  • LipidXte software enables post-acquisition adjustment for improved quantification.
  • Achieved unbiased absolute molar quantification of glycerophospholipid species, independent of instrument parameters and standards.

Conclusions:

  • The developed fragmentation model and LipidXte software significantly improve the accuracy of shotgun lipidomics.
  • This approach allows for reliable and reproducible quantification of glycerophospholipids.
  • The method is robust across different instrument settings and internal standards, enhancing lipidomics research.