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Single Nucleotide Polymorphisms-SNPs

Single Nucleotide Polymorphisms-SNPs

A single nucleotide polymorphism or SNP is a single nucleotide variation at a specific genomic position in a large population. It is the most prevalent type of sequence variation found in the human genome. Point mutations that occur in more than 1% of the population qualify as SNPs. These are present once every 1000 nucleotides on an average in the human genome. Replacement of a purine with another purine (A/G) or a pyrimidine with another pyrimidine (C/T) is known as a transition. In contrast,...

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Related Experiment Video

Updated: Jul 16, 2026

In Vitro Culture for H5N1-Specific Duck T Cells and Detection of Immune Responses Using Intracellular Cytokine Staining Method

In Vitro Culture for H5N1-Specific Duck T Cells and Detection of Immune Responses Using Intracellular Cytokine Staining Method

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Development and Characterization of a Single Nucleotide Polymorphism Genotyping Panel for Duck Populations.

Yeongkuk Kim¹, Jaegwon Kim², Eunjin Cho³

¹Quantomic Research & Solution Co., Daejeon 34134, Republic of Korea.

Animals : an Open Access Journal From MDPI

|July 15, 2026

Summary

Researchers developed a 40K single nucleotide polymorphism (SNP) genotyping panel for ducks. This new tool enhances genetic diversity studies and genomic selection in duck populations.

Keywords:

DNA genotyping panel SNP WGS ducks

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Area of Science:

Animal Genomics
Molecular Genetics

Background:

Single nucleotide polymorphism (SNP) genotyping panels are crucial for genetic diversity studies and genomic selection in domesticated animals.
Currently, such panels are unavailable for domesticated ducks, hindering genetic research and breeding programs.

Purpose of the Study:

To develop a high-density SNP genotyping panel for domesticated ducks.
To facilitate genetic diversity assessment and genomic selection in duck populations.

Main Methods:

Whole-genome sequencing data from 74 ducks were analyzed.
SNP calling was performed, followed by filtering based on minor allele frequency (MAF) and linkage disequilibrium (LD) criteria.
SNPs from 33 Quantitative Trait Loci (QTL)-associated genes were manually incorporated, and the panel's performance was validated on 28 additional samples.

Main Results:

A 40K SNP genotyping panel was successfully developed, comprising 35,613 markers after stringent filtering and gene incorporation.
The panel demonstrated a high call rate (98.9%) and robustness, with 33,870 SNPs confirmed as usable after quality control.
The developed panel maintained genetic distances and showed suitability for large-scale genomic studies.

Conclusions:

A robust and high-density SNP genotyping panel for ducks has been established.
This panel is a valuable tool for advancing genetic improvement, trait selection, and diversity studies in duck populations.
The successful development addresses a critical need in duck genomics research.