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How to extract DNA in under 45 minutes
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Knowledge

How to extract DNA in less than 45 minutes

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DNA extraction at its best

DNA extraction is a fundamental step in many molecular biology workflows, from NGS to qPCR and ddPCR. In this knowledge topic, we explain how you can extract DNA in under 45 minutes, so that you can save valueable time, while maintaining high-quality results. 
In summary?
  1. What is DNA extraction?
  2. Which tools do I need for the job?
  3. How to extract DNA in 3 steps?
  4. Conclusion.

DNA extraction

What is DNA extraction?

Without good information progress cannot be made. This holds true for genetic information in research, diagnostics, drug development and other biotech applications. The quality of this genetic information relies on efficient and high-quality DNA or RNA extraction. Traditionally this was done with the use of hazardous chemicals such as phenol and chloroform, which was a slow and potentially dangerous way of extracting DNA. Current methods rely on specialized filters, significantly reducing time and avoiding the use of chemicals, but this method is difficult to scale up to large volumes. Luckily, the developments on material sciences allow for automatization of this process, further reducing time and improving quality. Below we will explain step-by-step how a modern process of DNA or RNA extraction looks like. 

Tools for the job

Which Tools do I need for the job?

To prepare the sample we use the Biometra TS1 Thermoshaker from Analytik Jena. To prepare a reliable DNA extraction it is essential to incubate the samples before extracting. 

For the extraction itself we use a DNA extraction robot from Innuscreen. This device comes in three forms: The PurePrep Mini, the PurePrep Midi, and the PurePrepMaxi.
The PurePrep Mini is a compact benchtop device designed for small-scale labs, capable of processing up to 16 samples simultaneously. For larger sample volumes, the PurePrep Midi (up to 32 samples) and PurePrep Maxi (up to 96 samples) provide more scalable solutions while maintaining the same streamlined workflow.

After extraction it is important to rapidly and accurately determine the quality and quantity of your extraction. For this we use the Implen NP80 Touch. the Implen NP80 spectrophotometer enables precise quantification and purity assessment, ensuring reliable results for downstream applications.

Extracting DNA

How to extract DNA in 3 steps, in under 45 Minutes?


Step 1: Lysis – Breaking Down the Cells
First we need to release the genetic material from the cellular prison. This is done by exposing the cells to a lysis solution containing Proteinase K. An incubation in a thermoshaker ensures efficient release of DNA. How long this takes depends heavily on the tissue you use. For mice tails this can take up to 90 minutes. Softer tissues can be done within the hour.

Step 2: DNA Extraction – Automated Purification
Once lysis is complete, the lysed sample is transferred into a deep-well plate or strip, ready for automated extraction with the PurePrep Mini, Midi, or Maxi systems. The system then carries out all the tasks you used to perform yourself. This includes a 10 minute incubation to bind the DNA to the Smart Modified surfaces of the PurePrep Tip Comp. Alternatively magnetic beads can be used just as easily. After binding a quick was to remove any impurities followed by an elution process to collect your purified DNA. This all is completed within 45 minutes.

Step 3: Quantification & Quality Assessment
Lastly, verify the yield and purity to ensure efficient downstream applications such as NGS to qPCR and ddPCR. An excellent way to perform this quality assessment is by using a nanophotometer like the Implen NP80 spectrophotometer.  Receive fast, accurate and reliable data from as little as 0.5 ul sample.

Example Results for High-Yield DNA Extraction
Mouse Tail DNA Extraction
• Starting material: 20 mg / 40 mg mouse tail
• Yield: Up to 19 µg of HMW DNA
• Purity: A260/280 & A260/230 ratios ~1.9

Mouse Lung Tissue DNA Extraction
• Starting material: 7 mg / 15 mg lung sample
• Yield: Up to 25 µg of HMW DNA
• Purity: High DNA integrity, ideal for downstream applications
Optimizing qPCR with best in class tools

Our solutions

Conclusion

The PurePrep Mini, Midi, and Maxi systems offer a fast and efficient method for extracting high-quality DNA from various sample types. By automating the process, these systems reduce hands-on time while ensuring reliable results. The entire extraction workflow, post-lysis, is completed in under 45 minutes, making it an excellent choice for labs that require efficiency without compromising quality.

For precise quantification, the Implen NP80 spectrophotometer provides an easy and reliable method to assess DNA purity and yield, ensuring optimal performance in downstream applications. This streamlined approach simplifies DNA extraction while maintaining the high standards required for molecular research.