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DNA Isolation

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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Updated: Jan 8, 2026

Genotyping Single Nucleotide Polymorphisms in the Mitochondrial Genome by Pyrosequencing

Genotyping Single Nucleotide Polymorphisms in the Mitochondrial Genome by Pyrosequencing

Published on: February 10, 2023

An efficient preprocessing workflow tailored for mitochondrial genome assembly from fragmented DNA.

Yongheng Zhou¹, Peng Gao², Shuhui Yang³

¹School of Resources and Environmental Engineering, Anhui University, Anhui 230601, China.

Forensic Science International

|December 16, 2025

Summary

This summary is machine-generated.

We developed MTAK, a new workflow to improve mitochondrial DNA (mtDNA) genome assembly from degraded samples. This method enhances accuracy and efficiency for forensic and conservation genetics applications.

Keywords:

DNA damage Fragmented DNA Mitochondrial assembly Pre-processing workflow

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Last Updated: Jan 8, 2026

Genotyping Single Nucleotide Polymorphisms in the Mitochondrial Genome by Pyrosequencing

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Published on: February 10, 2023

Simultaneous Mapping and Quantitation of Ribonucleotides in Human Mitochondrial DNA

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Published on: November 14, 2017

Methodology for Accurate Detection of Mitochondrial DNA Methylation

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Published on: May 20, 2018

Area of Science:

Genomics
Bioinformatics

Background:

Mitochondrial DNA (mtDNA) is crucial for forensics, species identification, and conservation.
Degraded DNA from wildlife and historical samples hinders accurate mtDNA genome assembly.

Purpose of the Study:

To develop a preprocessing workflow (MTAK) to enhance mtDNA genome assembly from fragmented and damaged DNA.
To improve the efficiency and accuracy of mtDNA recovery from challenging samples.

Main Methods:

MTAK workflow involves homologous read extraction via reference alignment and targeted processing of damaged DNA ends.
An interaction model was implemented to guide optimal sequencing depth for efficient assembly.
The workflow was evaluated on 24 degraded samples of varying quality.

Main Results:

MTAK significantly improved mtDNA assembly completeness and accuracy, especially in highly damaged samples.
The workflow reduced computational time by over tenfold and minimized resource consumption.
MTAK is compatible with existing assembly tools, enhancing mtDNA recovery from historical and wildlife samples.

Conclusions:

MTAK offers a robust solution for assembling mtDNA genomes from degraded DNA sources.
This approach is vital for advancing applications in forensic genetics, species identification, and conservation biology.
The method optimizes resource utilization and computational efficiency in genomic analyses.