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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,...

Comparing Copy Number Variations and SNPs

Comparing Copy Number Variations and SNPs

Sequencing of the human genome has opened up several best-kept secrets of the genome. Scientists have identified thousands of genome variations that exist within a population. These variations can be a single nucleotide or a larger chromosomal variation.
Copy number variations or CNVs are the structural variations that cover more than 1kb of DNA sequence. The single nucleotide polymorphism (SNP), on the other hand, is a single nucleotide change or a point mutation that is found in more than 1%...

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Updated: Jun 8, 2026

A Simple Method for Isolation of Soybean Protoplasts and Application to Transient Gene Expression Analyses

A Simple Method for Isolation of Soybean Protoplasts and Application to Transient Gene Expression Analyses

Published on: January 25, 2018

SNPs discovery and CAPS marker conversion in soybean.

Yongjun Shu¹, Yong Li, Zhenlei Zhu

¹College of Life Science, Northeast Agricultural University, 150030 Harbin, Heilongjiang, People's Republic of China.

Molecular Biology Reports

|September 23, 2010

Summary

This summary is machine-generated.

Researchers discovered 3899 soybean SNPs using high-throughput sequencing, enabling a fast and cost-effective assay system. This advancement aids in molecular-assisted breeding for improved soybean traits.

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Area of Science:

Plant genetics
Molecular biology
Agricultural science

Background:

Single Nucleotide Polymorphisms (SNPs) are crucial genetic markers for crop improvement.
Developing efficient methods for SNP discovery and assay is essential for soybean breeding.

Purpose of the Study:

To identify novel SNPs in soybean using high-throughput sequencing.
To develop a cost-effective assay method for SNP analysis in soybean.
To associate identified SNPs with important agronomic traits.

Main Methods:

Comparison of high-throughput pyrosequencing ESTs with whole genome sequences across soybean varieties.
SNP validation in multiple soybean cultivars.
Conversion of validated SNPs into CAPS (Cleaved Amplified Polymorphic Sequence) markers.
Functional gene association analysis.

Main Results:

Identified 3899 SNPs, with transitions being more frequent than transversions.
SNPs are widely distributed across the soybean genome, targeting genes related to agronomic traits.
Validated 16 SNPs and converted 7 into CAPS markers.
Identified CAPS282 marker associated with 100-seed weight in soybean.

Conclusions:

The developed SNP discovery and CAPS marker conversion system is fast and cost-effective.
This system shows significant potential for molecular-assisted breeding in soybean.
The identified SNPs provide valuable resources for understanding soybean genetics and improving crop performance.