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Related Concept Videos

Single Nucleotide Polymorphisms-SNPs01:05

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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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The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
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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.
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Single nucleotide polymorphism analysis of Korean native chickens using next generation sequencing data.

Dong-Won Seo1, Jae-Don Oh, Shil Jin

  • 1Department of Animal Science and Biotechnology, Chungnam National University, Daejeon, 305-764, Korea.

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|October 12, 2014
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Summary

Researchers sequenced the genomes of five Korean native chicken lines, identifying millions of common and novel single nucleotide polymorphisms (SNPs). This genomic data is crucial for understanding genetic diversity and improving traits in poultry.

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Area of Science:

  • Genomics
  • Animal Genetics
  • Poultry Science

Background:

  • Korean native chickens represent important genetic resources, classified by plumage color.
  • Understanding their genetic makeup is vital for the Korean poultry industry.

Purpose of the Study:

  • To perform whole genome sequencing and reference assembly on five Korean native chicken lines.
  • To identify common and novel single nucleotide polymorphisms (SNPs) within these lines.

Main Methods:

  • Utilized next-generation sequencing technology for whole genome sequencing.
  • Performed reference assemblies using Gallus_gallus_4.0 (NCBI).
  • Identified SNPs across 29 autosomes and the Z chromosome.

Main Results:

  • Obtained extensive raw sequence data and high-coverage reference assemblies.
  • Identified over 4 million SNPs, including 752,309 common SNPs across lines.
  • Characterized various SNP types, including synonymous, non-synonymous, and novel variations.

Conclusions:

  • The generated genome sequence and SNP data provide a valuable resource for Korean native chickens.
  • This information can be applied to future genomic studies, including genetic diversity and trait-associated mutation discovery.