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Related Experiment Video

Updated: Jan 14, 2026

Capturing Chromosome Conformation Across Length Scales

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

High-Resolution Chromosome Conformation Capture Method to Study Archaeal SMC Complexes.

Kodai Yamaura¹, Naomichi Takemata²

¹Research Organization of Science and Technology, Ritsumeikan University, Kusatsu, Japan.

Methods in Molecular Biology (Clifton, N.J.)

|October 19, 2025

Summary

This summary is machine-generated.

Structural Maintenance of Chromosomes (SMC) ATPases regulate genome architecture. This study optimizes a high-resolution 3C-seq method to map genome organization in the hyperthermophilic archaeon Thermococcus kodakarensis.

Keywords:

3C-seq Archaea Hi-C SMC Thermococcus kodakarensis

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Related Experiment Videos

Last Updated: Jan 14, 2026

Capturing Chromosome Conformation Across Length Scales

Capturing Chromosome Conformation Across Length Scales

Published on: January 20, 2023

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Hi-C: A Method to Study the Three-dimensional Architecture of Genomes.

Published on: May 6, 2010

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Deciphering High-Resolution 3D Chromatin Organization via Capture Hi-C

Published on: October 14, 2022

Area of Science:

Genomics
Molecular Biology
Archaea Biology

Background:

Structural Maintenance of Chromosomes (SMC) ATPases are crucial for 3D genome architecture across life.
While SMC homologs exist in Archaea, their specific functions in archaeal genome organization are not well understood.
Chromosome Conformation Capture (3C) based sequencing methods like Hi-C and 3C-seq have begun to elucidate genome organization in archaea.

Purpose of the Study:

To present an optimized high-resolution 3C-seq protocol for studying genome organization.
To investigate the role of SMC proteins in the genome architecture of the hyperthermophilic archaeon Thermococcus kodakarensis.

Main Methods:

Development and optimization of a high-resolution 3C-seq protocol.
Application of the protocol to the model archaeon Thermococcus kodakarensis.
Analysis of genome-wide interactions to infer 3D genome structure.

Main Results:

The optimized 3C-seq protocol provides high-resolution mapping of genome organization.
Archaeal SMC proteins display conserved and distinct features compared to eukaryotic and bacterial counterparts.
The study provides insights into the specific role of SMC in Thermococcus kodakarensis genome architecture.

Conclusions:

The optimized 3C-seq protocol is effective for high-resolution genome organization studies in hyperthermophilic archaea.
Understanding archaeal SMC functions contributes to the broader knowledge of genome regulation across domains of life.
This work lays the foundation for further investigations into archaeal genome structure and dynamics.