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

A male-derived volatile sex pheromone in Caenorhabditis nematodes identified through its mimicry by a predator.

Communications biology·2026
Same author

Identification of <i>srh-30</i> as a 2-nonanone receptor in <i>C. elegans</i>.

bioRxiv : the preprint server for biology·2026
Same author

Mapping and engineering the human cell-cell interactome.

Nature biotechnology·2026
Same author

AI in biocuration: challenges, opportunities, and a roadmap for sustainable integration.

Bioinformatics advances·2026
Same author

The forkhead transcription factor FKH-7/FOXP acts in Caenorhabditis elegans chemosensory neurons to shape a life history strategy.

Genetics·2026
Same author

Efficient pheromone navigation via antagonistic detectors in Caenorhabditis elegans male.

Nature communications·2026

Related Experiment Video

Updated: Apr 18, 2026

Hand Dissection of Caenorhabditis elegans Intestines
05:41

Hand Dissection of Caenorhabditis elegans Intestines

Published on: September 13, 2022

4.3K

Whole-organism spatial transcriptomics at single-cell resolution in C. elegans.

Jose David Aguirre Aguilera1,2, Xuan Wan1,2, Carsten H Tischbirek1,3

  • 1Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA, USA.

Biorxiv : the Preprint Server for Biology
|April 17, 2026
PubMed
Summary

Researchers developed a new method for spatial transcriptomics in whole Caenorhabditis elegans (C. elegans) worms. This technique allows detailed mapping of gene expression in single cells across the entire organism, advancing our understanding of worm biology.

More Related Videos

High-Throughput Quantitative RT-PCR in Single and Bulk C. elegans Samples Using Nanofluidic Technology
08:19

High-Throughput Quantitative RT-PCR in Single and Bulk C. elegans Samples Using Nanofluidic Technology

Published on: May 28, 2020

8.7K
Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution
08:16

Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution

Published on: June 6, 2019

8.9K

Related Experiment Videos

Last Updated: Apr 18, 2026

Hand Dissection of Caenorhabditis elegans Intestines
05:41

Hand Dissection of Caenorhabditis elegans Intestines

Published on: September 13, 2022

4.3K
High-Throughput Quantitative RT-PCR in Single and Bulk C. elegans Samples Using Nanofluidic Technology
08:19

High-Throughput Quantitative RT-PCR in Single and Bulk C. elegans Samples Using Nanofluidic Technology

Published on: May 28, 2020

8.7K
Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution
08:16

Isotropic Light-Sheet Microscopy and Automated Cell Lineage Analyses to Catalogue Caenorhabditis elegans Embryogenesis with Subcellular Resolution

Published on: June 6, 2019

8.9K

Area of Science:

  • Molecular Biology
  • Genomics
  • Neuroscience

Background:

  • Spatial transcriptomics advances tissue organization studies by mapping gene expression in situ.
  • Applying spatial transcriptomics to whole organisms like C. elegans is challenging due to resolution and multiplexing limitations.

Purpose of the Study:

  • To develop a high-resolution, multiplexed spatial transcriptomics method for whole C. elegans.
  • To enable comprehensive gene expression profiling across intact worms while preserving spatial context.

Main Methods:

  • Single-molecule fluorescence in situ hybridization (smFISH) workflow.
  • Sequential imaging across 20 hybridization rounds using two fluorescent channels for up to 40 genes.
  • Curated marker-gene panel for neuron identification and probabilistic transcript assignment to nuclei.

Main Results:

  • Achieved single-cell resolution gene expression profiling across the entire C. elegans.
  • Enabled quantitative measurement of gene expression levels and identification of up to 86 neuronal classes.
  • Revealed sex- and neuron-specific expression patterns at single-cell resolution.

Conclusions:

  • Established a scalable framework for spatial gene expression analysis in intact C. elegans.
  • The method facilitates linking molecular data to cellular function and behavior within the worm.
  • Provides a powerful tool for understanding whole-organism biology at unprecedented molecular resolution.