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DNA markers

A technology that simultaneously fragments DNA and labels it with adapter sequences, primarily used to efficiently prepare DNA libraries for next-generation sequencing (NGS). This process is critical for workflows such as DNA sequencing, targeted studies, metagenomics, and chromatin analysis such as ATAC-seq.

Which workflows require DNA labeling?

The main purpose of DNA labeling is to prepare DNA libraries quickly and efficiently for next-generation sequencing. This process simplifies library preparation, reduces the time and steps required, and enables more uniform coverage during sequencing. DNA markers are commonly used in a variety of workflows, such as:

DNA sequencing, especially NGS workflows.
Targeted sequencing studies of specific genomic regions of interest.
Metagenomic studies sequencing diverse biological communities.
Chromatin profiling studies such as ATAC-seq (Analysis of Transposase Accessible Chromatin Using Sequencing).

DNA labeling has never been easier

The OT-2 is a benchtop liquid handling station designed for the convenience and flexibility of automating many common applications.

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Best methods for DNA labeling

Nextera DNA library preparation: This commercial method, developed by Illumina, uses a specific transposase for labeling.
ATAC-seq: This method combines tagging with sequencing to assess chromatin accessibility.
Customized transposase systems: Some research groups have optimized transposase enzymes and protocols for specific applications or organisms.

Agreement Highlights

Opentrons helps you automate DNA labeling using open source protocols for OT-2 and Opentrons Flex

IL lumina DNA prep: tag genomic DNA
NEX TERA DNA flex library prep: tag disciple DNA
IL lumina DNA prep: part 1 tag mention

Why is DNA labeling so difficult?

Enzyme sensitivity: Transposase is sensitive to various factors such as concentration, reaction time and temperature. Small deviations can lead to over- or under-marking.
Optimization: Achieving uniform fragmentation and uniform coverage during sequencing requires careful optimization of labeling conditions.
DNA Quality: The purity and integrity of your DNA sample affects labeling efficiency and results.

Key challenges in DNA labeling with manual pipetting

Reproducibility: Manual pipetting can cause variations in enzyme and DNA concentrations, leading to inconsistent results.
Contamination risk: Manual pipetting increases the risk of cross-contamination between samples.
Efficiency: Preparing multiple samples simultaneously consumes a lot of labor and time.

Advantages of automated DNA labeling compared to manual pipetting:

Consistency and repeatability: Automated systems provide consistent output and reduce human error.
Throughput: Automated systems can process multiple samples simultaneously, significantly reducing preparation time.
Reduce the risk of contamination: Reduce manual intervention and reduce the risk of cross-contamination.
Optimization: Automated systems can be programmed to test multiple conditions simultaneously to help optimize labeling conditions.

Learn more

Feel free to contact us and our team of professional application scientists will help you confirm whether the automated experimental process is suitable for your needs. If you need to check the operation of the experimental process, you can schedule an online demo with us to discuss your experimental needs in depth with the expert team.

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