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LSAT: Liliaceae Simple Sequences Analysis Tool, a web server.

Manosh Kumar Biswas1, Sathishkumar Natarajan1, Dhiman Biswas2

  • 1Department of Horticulture, Sunchon National University, Suncheon, Jeonnam, 57922 South Korea.

Bioinformation
|July 10, 2018
PubMed
Summary

LSAT is a user-friendly web tool for designing microsatellite SSR markers in the Liliaceae family. It aids in SSR mining and primer design using extensive lily sequence data.

Keywords:
LilySSR-markerWeb-Tool

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Area of Science:

  • Bioinformatics
  • Genomics
  • Molecular Biology

Background:

  • The Liliaceae family presents unique challenges for genetic marker development.
  • Existing tools may not adequately address the specific needs of Liliaceae research.

Purpose of the Study:

  • To introduce LSAT, a dedicated web-based tool for designing microsatellite Simple Sequence Repeat (SSR) markers.
  • To facilitate SSR mining and primer design for the Liliaceae family.

Main Methods:

  • LSAT is developed using standard web technologies (HTML, CSS, PHP, Perl, Java).
  • It utilizes comprehensive datasets including lily EST and nr unigenes (4,099 and 216,768, respectively).
  • The tool offers a user-friendly interface with customizable search parameters and visual output.

Main Results:

  • LSAT provides an efficient platform for SSR primer design within the Liliaceae family.
  • The tool supports SSR mining, enabling researchers to identify potential genetic markers.
  • Visual output and download options enhance usability for downstream applications.

Conclusions:

  • LSAT offers a valuable, accessible resource for Liliaceae genetic research.
  • Regular updates based on new genomic data will ensure LSAT's continued relevance.
  • The tool simplifies the process of SSR marker development for this important plant family.