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Resequencing of Eukaryotic Organisms

Use eukaryotic resequencing to:
  • Detect single nucleotide to large structural variations in your eukaryotic model organism
  • Detect off target mutations of your CRISPR/Cas9 gene editing experiment



Considerations before starting a eukaryotic resequencing project:

  • Is there a suitable reference genome?
  • Optimal sequencing depth?
  • Aim of the study versus limits of a reference transcriptome?
  • Read length?

Let us guide you – from design to analysis

Example projects using eukaryotic resequencing:

  • Detection of mutations aquired by cancer cells – from SNPs to large structural variations
  • Insertion site detection
  • Mutation verification, ruling out off-target mutations
  • Genetic modifications in breeding studies

Applications related to eukaryotic resequencing:

  • Microbial Resequencing and profiling
  • RNA Sequencing
  • Whole exome resequencing


A typical workflow for a eukaryotic resequencing project is shown in the graphic below. Please note that our highly-modular processes allow you various entry and opting out options. If you outsource your entire NGS project to Microsynth or only parts of it is up to you.
For further reading and a detailed technical description, please download our Application Note Eukaryotic Resequencing (see related downloads).


The results produced by our eukaryotic resequencing analysis module help answer three main questions of a resequencing of an eukaryotic organism aiming at detecting variations to a pre-annotated reference genome.
  1. Which are the single nucleotide variations and small insertions/deletions in comparison to the reference genome and which are the effects of these detected variations on the protein level? (see Table 1)
  2. Which are the structural variations in comparison to the reference genome? (see Table 2)
  3. Which are the copy number variations in comparison to the reference genome (or to a reference sample)? (see Figure 1)


Table 1: This detail of a result table shows detected single nucleotide variations, small insertions and deletions and their annotation.

Table 2: This detail of a result table lists putative structural variations.

Figure 1: This figure depicts a possible copy number variation in relation to a reference sample.