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Related Concept Videos

Next-generation Sequencing03:00

Next-generation Sequencing

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.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.

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Updated: May 15, 2026

Pyrosequencing for Microbial Identification and Characterization
12:37

Pyrosequencing for Microbial Identification and Characterization

Published on: August 22, 2013

Lessons learned from microsatellite development for nonmodel organisms using 454 pyrosequencing.

C N Schoebel1, S Brodbeck, D Buehler

  • 1Biodiversity & Conservation Biology, WSL Swiss Federal Research Institute, Birmensdorf, Switzerland. corine.schoebel@wsl.ch

Journal of Evolutionary Biology
|January 22, 2013
PubMed
Summary
This summary is machine-generated.

Developing microsatellites, or simple sequence repeats (SSRs), using 454 pyrosequencing is efficient for nonmodel organisms. This method successfully identifies polymorphic markers across diverse species, even with small repeat numbers.

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Area of Science:

  • Genetics
  • Evolutionary Biology
  • Ecology

Background:

  • Microsatellites (simple sequence repeats, SSRs) are crucial markers in evolutionary and ecological research.
  • Next-generation sequencing (NGS) technologies, like 454 pyrosequencing, enable rapid development of these markers in nonmodel organisms.

Purpose of the Study:

  • To present a user-friendly method for microsatellite marker development from 454 pyrosequencing data.
  • To analyze microsatellite repeat and flanking region data from 17 diverse nonmodel species.
  • To compare marker development success and identify challenges across different species.

Main Methods:

  • Utilized 454 pyrosequencing data from 17 nonmodel species (plants, fungi, invertebrates, birds, mammal).
  • Analyzed sequence data for microsatellite repeats and flanking regions suitable for primer design.
  • Evaluated successful primer identification and characterized challenges like genome size and DNA purity.

Main Results:

  • Successful primer identification was achieved for all 17 species.
  • Polymorphic markers were developed even from short repeat numbers (5-6 repeats) in species like fungi.
  • Marker development was more time and cost-intensive for species with larger genomes.

Conclusions:

  • 454 pyrosequencing provides a robust and efficient method for microsatellite marker development across diverse nonmodel organisms.
  • The required amount of sequencing data varies by species for successful marker identification.
  • This approach facilitates ecological genetic studies by enabling marker development even in challenging species.