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Related Concept Videos

DNA Isolation01:24

DNA Isolation

DNA isolation protocols can be fast and straightforward or complex and time-consuming depending on the type and quality of DNA required for further processing. For example, plasmid DNA extraction is a bit more complicated than genomic DNA extraction because of the need for an appropriate lysis method to separate plasmid DNA from gDNA during isolation. However, for specific applications, such as long-range DNA sequencing that require a good yield of high- quality DNA samples, we need to follow...

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Genome-wide Purification of Extrachromosomal Circular DNA from Eukaryotic Cells
14:26

Genome-wide Purification of Extrachromosomal Circular DNA from Eukaryotic Cells

Published on: April 4, 2016

Technological advances in extrachromosomal circular DNA detection.

Yushuang Song1, Bo Liu1, Zhengning Wang1

  • 1School of Life Sciences, Qufu Normal University, Qufu, Shandong Province 273165, China; Shandong Key Laboratory of Wetland Ecology and Biodiversity Conservation in the Lower Yellow River, Qufu, Shandong Province 273165, China.

Biotechnology Advances
|June 25, 2026
PubMed
Summary

Extrachromosomal circular DNA (eccDNA) molecules are key to genome plasticity and evolution. New sequencing technologies and computational tools enhance eccDNA detection and functional studies, advancing our understanding of genome organization.

Keywords:
Detection technologyExtrachromosomal circular DNANanopore sequencingNext-generation sequencingSingle-cell sequencingSingle-molecule real-time

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Area of Science:

  • Genomics
  • Molecular Biology
  • Cancer Research

Background:

  • Extrachromosomal circular DNA (eccDNA) are independent DNA molecules crucial for genome plasticity, cancer progression, drug resistance, and evolution.
  • Advances in sequencing, computational biology, and genome editing have transformed eccDNA detection and functional analysis.
  • Single-molecule sequencing technologies enable cellular-level eccDNA investigation.

Purpose of the Study:

  • To systematically evaluate high-throughput sequencing methods for eccDNA detection.
  • To discuss the principles, strengths, limitations, and applications of current eccDNA detection techniques.
  • To propose novel visualization strategies and future research directions for eccDNA biology.

Main Methods:

  • Review of current high-throughput sequencing-based methods for eccDNA detection.
  • Analysis of technical principles, advantages, and disadvantages of various methods.
  • Exploration of single-molecule real-time and Nanopore sequencing applications.

Main Results:

  • Identification of key sequencing-based methods for eccDNA detection.
  • Evaluation of the utility and limitations of existing eccDNA detection technologies.
  • Highlighting the impact of new sequencing technologies on eccDNA research.

Conclusions:

  • Current methods provide powerful tools for eccDNA detection and characterization.
  • Novel visualization and multi-omics integration are essential for future eccDNA research.
  • This review offers a comprehensive resource for eccDNA biology researchers.