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

Cis-regulatory Sequences02:02

Cis-regulatory Sequences

Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
Genome Annotation and Assembly03:36

Genome Annotation and Assembly

The genome refers to all of the genetic material in an organism. It can range from a few million base pairs in microbial cells to several billion base pairs in many eukaryotic organisms. Genome assembly refers to the process of taking the DNA sequencing data and putting it all back together in a correct order to create a close representation of the original genome. This is followed by the identification of functional elements on the newly assembled genome, a process called genome annotation.
Genetic Screens02:46

Genetic Screens

Genetic screens are tools used to identify genes and mutations responsible for phenotypes of interest. Genetic screens help identify individuals or a group of people at risk of developing  genetic diseases and help them with early intervention, targeted therapy, and reproductive options.
Forward genetic screens
Forward or “classical” genetic screens involve creating random mutations in an organism’s DNA using radiation, mutagens, or insertion of additional bases, which result in visible changes...

You might also read

Related Articles

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

Sort by
Same author

Protocol for genotyping cephalopod sex using a skin swab and quantitative PCR.

STAR protocols·2026
Same author

MKado: a toolkit for McDonald-Kreitman tests of natural selection.

G3 (Bethesda, Md.)·2026
Same author

Ecotypes, <i>Wolbachia</i>, and urbanization shape <i>Culex pipiens</i> population structure in a West Nile virus hotspot.

bioRxiv : the preprint server for biology·2026
Same author

Diversity and divergence of two sympatric, sibling octopus species.

bioRxiv : the preprint server for biology·2026
Same author

A non-invasive method to genotype cephalopod sex by quantitative PCR.

iScience·2026
Same author

Neural posterior estimation for population genetics.

Genetics·2026

Related Experiment Video

Updated: May 12, 2026

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish
11:42

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish

Published on: October 27, 2017

Functional Annotation and Comparative Analysis of a Zygopteran Transcriptome.

Alexander G Shanku1, Mark A McPeek2, Andrew D Kern3

  • 1Rutgers, The State University of New Jersey, Department of Genetics, Piscataway, New Jersey 08854-8082 alexander.shanku@rutgers.edu.

G3 (Bethesda, Md.)
|April 4, 2013
PubMed
Summary

This study presents the first de novo transcriptome assembly for the damselfly Enallagma hageni, providing crucial nuclear protein-encoding genes for arthropod phylogeny. The research also identifies genes with varied evolutionary rates and offers functional annotations for palaeopteran transcriptomes.

More Related Videos

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
07:09

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

An Experimental and Bioinformatics Protocol for RNA-seq Analyses of Photoperiodic Diapause in the Asian Tiger Mosquito, Aedes albopictus
12:10

An Experimental and Bioinformatics Protocol for RNA-seq Analyses of Photoperiodic Diapause in the Asian Tiger Mosquito, Aedes albopictus

Published on: November 30, 2014

Related Experiment Videos

Last Updated: May 12, 2026

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish
11:42

Sample Preparation and Analysis of RNASeq-based Gene Expression Data from Zebrafish

Published on: October 27, 2017

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq
07:09

A Bioinformatics Pipeline for Investigating Molecular Evolution and Gene Expression using RNA-seq

Published on: May 28, 2021

An Experimental and Bioinformatics Protocol for RNA-seq Analyses of Photoperiodic Diapause in the Asian Tiger Mosquito, Aedes albopictus
12:10

An Experimental and Bioinformatics Protocol for RNA-seq Analyses of Photoperiodic Diapause in the Asian Tiger Mosquito, Aedes albopictus

Published on: November 30, 2014

Area of Science:

  • Insect genomics
  • Transcriptomics
  • Phylogenetics

Background:

  • Odonata (damselflies and dragonflies) represent a basal lineage of winged insects (Pterygota).
  • Phylogenetic analyses of Enallagma species have historically relied on mitochondrial or ribosomal nuclear DNA.
  • A comprehensive nuclear protein-encoding gene dataset is needed for robust phylogenetic placement of Enallagma.

Purpose of the Study:

  • To perform a de novo assembly of the Enallagma hageni transcriptome.
  • To generate a dataset of nuclear protein-encoding genes for phylogenetic analysis.
  • To investigate gene evolutionary rates and provide functional annotation for a palaeopteran transcriptome.

Main Methods:

  • 454 pyrosequencing was used for de novo transcriptome assembly.
  • Contigs were assembled and translated into open reading frames.
  • Bayesian phylogenetic methods were applied using 634 orthologous nuclear protein-encoding genes from 11 Arthropoda species.
  • Gene Ontology (GO) searches and clustering were employed for functional annotation.

Main Results:

  • A total of 31,661 contigs were assembled, yielding 14,813 open reading frames.
  • The study constructed a dataset of 634 orthologous nuclear protein-encoding genes.
  • 169 genes exhibited differential evolutionary rates (29 accelerated, 140 decreased).
  • The first functional annotation of a palaeopteran transcriptome was achieved.

Conclusions:

  • The Enallagma hageni transcriptome provides a valuable resource for arthropod phylogenetics.
  • The identified genes with varying evolutionary rates offer insights into insect evolution.
  • This work represents a significant advancement in understanding palaeopteran gene function and evolution.