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

Multi-species Conserved Sequences02:51

Multi-species Conserved Sequences

Next-generation sequencing technologies have created large genomic databases of a variety of animals and plants. Ever since the human genome project was completed, scientists studied the genome of primates, mammals, and other phylogenetically distant living beings. Such large-scale  studies have provided new insights into the evolutionary relationship between organisms.
Although the genome of each species varies greatly from each other, a few sequences are highly conserved. Such conserved DNA...
lncRNA - Long Non-coding RNAs02:39

lncRNA - Long Non-coding RNAs

In humans, more than 80% of the genome gets transcribed. However, only around 2% of the genome codes for proteins. The remaining part produces non-coding RNAs which includes ribosomal RNAs, transfer RNAs, telomerase RNAs, and regulatory RNAs, among other types. A large number of regulatory non-coding RNAs have been classified into two groups depending upon their length – small non-coding RNAs, such as microRNA, which are less than 200 nucleotides in length, and long non-coding RNA (lncRNA)...
Non-LTR Retrotransposons03:18

Non-LTR Retrotransposons

As the name suggests, non-LTR retrotransposons lack the long terminal repeats characteristic of the LTR retrotransposons. Additionally, both LTR and non-LTR retrotransposons use distinct mechanisms of mobilization. Non-LTR retrotransposons are further divided into two classes - Long interspersed nuclear elements (LINEs) and short interspersed nuclear elements (SINEs), both of which occur abundantly in most mammals, including humans. Some of the active non-LTR retrotransposons in humans are L1...
Conserved Binding Sites01:49

Conserved Binding Sites

Many proteins’ biological role depends on their interactions with their ligands, small molecules that bind to specific locations on the protein known as ligand-binding sites. Ligand-binding sites are often conserved among homologous proteins as these sites are critical for protein function.
Binding sites are often located in large pockets, and if their location on a protein’s surface is unknown, it can be predicted using various approaches. The energetic method computationally analyses the...
Gene Evolution - Fast or Slow?02:05

Gene Evolution - Fast or Slow?

The genomes of eukaryotes are punctuated by long stretches of sequence which do not code for proteins or RNAs. Although some of these regions do contain crucial regulatory sequences, the vast majority of this DNA serves no known function. Typically, these regions of the genome are the ones in which the fastest change, in evolutionary terms, is observed, because there is typically little to no selection pressure acting on these regions to preserve their sequences.
In contrast, regions which code...
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...

You might also read

Related Articles

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

Sort by
Same author

The dark genome in cardiovascular medicine.

European heart journal·2026
Same author

The molecular determinants of PABPC-mediated deadenylation rate.

bioRxiv : the preprint server for biology·2026
Same author

Widespread DNA off-targeting confounds RNA chromatin occupancy studies.

Nature biotechnology·2026
Same author

A microRNA generated via lysosomal processing of ribosomal RNA suppresses proinflammatory responses.

Life science alliance·2026
Same author

Direct roles of long non-coding RNAs in transcription activation.

Nature structural & molecular biology·2026
Same author

Global stabilization of the transcriptome in mitotic cells.

The EMBO journal·2026

Related Experiment Video

Updated: May 26, 2026

Validation of a Mouse Model to Disrupt LINC Complexes in a Cell-specific Manner
09:02

Validation of a Mouse Model to Disrupt LINC Complexes in a Cell-specific Manner

Published on: December 10, 2015

Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution.

Igor Ulitsky1, Alena Shkumatava, Calvin H Jan

  • 1Whitehead Institute for Biomedical Research, Cambridge, MA 02142, USA.

Cell
|December 27, 2011
PubMed
Summary

Researchers identified over 550 long intervening noncoding RNAs (lincRNAs) in zebrafish. These lincRNAs play vital roles in embryonic development, with conserved functions despite minimal sequence similarity across species.

More Related Videos

Preparation of Small RNA Libraries for Sequencing from Early Mouse Embryos
08:37

Preparation of Small RNA Libraries for Sequencing from Early Mouse Embryos

Published on: October 9, 2020

A Whole Mount In Situ Hybridization Method for the Gastropod Mollusc Lymnaea stagnalis
07:33

A Whole Mount In Situ Hybridization Method for the Gastropod Mollusc Lymnaea stagnalis

Published on: March 15, 2016

Related Experiment Videos

Last Updated: May 26, 2026

Validation of a Mouse Model to Disrupt LINC Complexes in a Cell-specific Manner
09:02

Validation of a Mouse Model to Disrupt LINC Complexes in a Cell-specific Manner

Published on: December 10, 2015

Preparation of Small RNA Libraries for Sequencing from Early Mouse Embryos
08:37

Preparation of Small RNA Libraries for Sequencing from Early Mouse Embryos

Published on: October 9, 2020

A Whole Mount In Situ Hybridization Method for the Gastropod Mollusc Lymnaea stagnalis
07:33

A Whole Mount In Situ Hybridization Method for the Gastropod Mollusc Lymnaea stagnalis

Published on: March 15, 2016

Area of Science:

  • Genomics
  • Developmental Biology
  • RNA Biology

Background:

  • Thousands of long intervening noncoding RNAs (lincRNAs) have been identified in mammals.
  • Understanding the evolution and function of these RNAs is crucial.

Purpose of the Study:

  • To identify and characterize lincRNAs in zebrafish.
  • To investigate the evolutionary conservation and functional roles of zebrafish lincRNAs during embryonic development.

Main Methods:

  • Utilized chromatin marks, poly(A)-site mapping, and RNA-Seq data for lincRNA identification.
  • Employed antisense reagents to target conserved regions and splice sites of zebrafish lincRNAs.
  • Assessed developmental defects and rescue experiments using mature lincRNAs and their mammalian orthologs.

Main Results:

  • Identified over 550 distinct lincRNAs in zebrafish, sharing characteristics with mammalian lincRNAs.
  • Found limited sequence similarity (29/550) with mammalian orthologs, often restricted to conserved regions.
  • Demonstrated that targeting conserved regions or splice sites of zebrafish lincRNAs caused developmental defects, which were rescued by homologous lincRNAs.
  • Showcased conserved genomic locations for some lincRNAs without sequence conservation.

Conclusions:

  • Zebrafish lincRNAs play critical roles in embryonic development.
  • lincRNA functionality is conserved across species despite limited sequence conservation.
  • This study provides a framework for lincRNA identification and analysis in model organisms.