Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Chromatin Position Affects Gene Expression

Chromatin Position Affects Gene Expression

Chromatin is the massive complex of DNA and proteins packaged inside the nucleus. The complexity of chromatin folding and how it is packaged inside the nucleus greatly influences access to genetic information. Generally, the nucleus' periphery is considered transcriptionally repressive, while the cell's interior is considered a transcriptionally active area.
Topologically Associated Domains (TADs)
The 3-dimensional positioning of chromatin in the nucleus influences the timing and level of...

Cis-regulatory Sequences

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...

Cis-regulatory Sequences

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...

Evolutionary Relationships through Genome Comparisons

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...

Position-effect Variegation

Position-effect Variegation

In 1928, a German botanist Emil Heitz observed the moss nuclei with a DNA binding dye. He observed that while some chromatin regions decondense and spread out in the interphase nucleus, others do not. He termed them euchromatin and heterochromatin, respectively. He proposed that the heterochromatin regions reflect a functionally inactive state of the genome. It was later confirmed that heterochromatin is transcriptionally repressed, and euchromatin is transcriptionally active chromatin.

Multi-species Conserved Sequences

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...

You might also read

Related Articles

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

Sort by

Same author

Evidence for G6PD variant classification from multiplexed functional assays.

Genome biology·2026

Same author

A cross-species rescue by mating method to interrogate gene essentiality across the <i>Saccharomyces</i> genus.

microPublication biology·2026

Same author

Beyond ERCs: exploring catastrophic forms of rDNA instability in aging yeast.

bioRxiv : the preprint server for biology·2026

Same author

Telomeric amplicons of <i>SUL1</i> and Y' in yeast are generated by microhomology-mediated break induced replication occurring <i>in cis</i>.

bioRxiv : the preprint server for biology·2026

Same author

Experimental assessment of AI-based interactome mapping.

Nature communications·2026

Same author

Chromosome-scale genome assembly and characterization of Saccharomycopsis schoenii, a necrotrophic predatory yeast.

G3 (Bethesda, Md.)·2026

Search research articles

Related Experiment Video

Updated: May 29, 2026

Combined Nucleotide and Protein Extractions in Caenorhabditis elegans

Combined Nucleotide and Protein Extractions in Caenorhabditis elegans

Published on: March 17, 2019

Nucleosome-coupled expression differences in closely-related species.

Yuanfang Guan¹, Victoria Yao, Kyle Tsui

¹Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, NJ 08544, USA.

|September 28, 2011

Summary

Nucleosome occupancy differences influence cell cycle gene expression divergence between yeast species. Altered nucleosome positioning on regulatory motifs impacts gene regulation and evolutionary changes.

More Related Videos

Single Nucleotide Polymorphism-sensitive FISH Detection of Locus-specific Ribosomal RNA Transcription in Drosophila melanogaster

Single Nucleotide Polymorphism-sensitive FISH Detection of Locus-specific Ribosomal RNA Transcription in Drosophila melanogaster

Published on: March 28, 2025

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

Published on: April 21, 2023

Related Experiment Videos

Last Updated: May 29, 2026

Combined Nucleotide and Protein Extractions in Caenorhabditis elegans

Combined Nucleotide and Protein Extractions in Caenorhabditis elegans

Published on: March 17, 2019

Single Nucleotide Polymorphism-sensitive FISH Detection of Locus-specific Ribosomal RNA Transcription in Drosophila melanogaster

Single Nucleotide Polymorphism-sensitive FISH Detection of Locus-specific Ribosomal RNA Transcription in Drosophila melanogaster

Published on: March 28, 2025

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

An Integrated Workflow to Study the Promoter-Centric Spatio-Temporal Genome Architecture in Scarce Cell Populations

Published on: April 21, 2023

Area of Science:

Molecular Biology
Genomics
Evolutionary Biology

Background:

Genome-wide nucleosome occupancy is inversely correlated with transcription factor motif binding in model organisms.
The relationship between nucleosome-motif interactions and species-specific phenotypic changes remains largely unexplored.

Purpose of the Study:

To investigate the role of nucleosome occupancy in cell cycle gene expression divergence between yeast species.
To determine if nucleosome-motif interactions explain differences in cell cycle regulation across species.

Main Methods:

Generation of nucleosome positioning data for Saccharomyces bayanus.
Analysis of cell cycle gene expression data for S. bayanus and comparison with S. cerevisiae.
Correlation of nucleosome occupancy patterns with motif conservation and gene expression.

Main Results:

Nucleosome occupancy differences correlate with cell cycle expression divergence between S. bayanus and S. cerevisiae.
Genes with nucleosome-depleted MBP1 motifs exhibit periodic cell cycle expression, unlike those with shielded motifs.
Conserved regulatory motifs are more nucleosome-depleted than non-conserved motifs, reflecting varying regulatory site conservation.

Conclusions:

Alterations in nucleosome occupancy are a novel factor contributing to the divergence of cell cycle gene expression between species.
Nucleosome occupancy patterns provide insights into the evolution of gene regulation and phenotypic differences.