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Related Experiment Videos

ZmDB, an integrated database for maize genome research.

Qunfeng Dong1, Laura Roy, Michael Freeling

  • 1Department of Zoology and Genetics, Iowa State University, Ames, IA 50011-3260, USA.

Nucleic Acids Research
|January 10, 2003
PubMed
Summary

The Zea mays DataBase (ZmDB) offers a comprehensive resource for maize genetics, integrating genomic data, gene expression, and mutant phenotypes. It provides access to analytical tools and ordering of research materials for corn genetic studies.

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Area of Science:

  • Genomics
  • Bioinformatics
  • Plant Science

Background:

  • The Zea mays DataBase (ZmDB) was established in 1999 to consolidate maize genetic information.
  • It originated from a project focused on maize gene discovery, sequencing, and phenotypic analysis.
  • ZmDB has expanded to encompass all public maize expressed sequence tags (ESTs), genome survey sequences (GSSs), and protein sequences.

Purpose of the Study:

  • To provide a unified and comprehensive view of maize (corn) genetics.
  • To link genomic sequence data with gene expression analysis and mutant plant phenotypes.
  • To offer analytical tools and web-based ordering of research materials.

Main Methods:

  • Clustering and annotation of over 170,000 maize ESTs into contigs and singlets.

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  • Assembly and annotation of over 100,000 GSSs using spliced alignment with EST and protein sequences.
  • Integration of sequence data with gene expression and phenotypic information.

    • Main Results:

    • ZmDB now contains clustered and annotated maize ESTs and GSSs.
    • The database links sequence data to potential protein products and phenotypic information.
    • ZmDB provides access to various sequence analysis tools and ordering of project-generated materials.

    Conclusions:

    • ZmDB serves as a valuable, integrated resource for maize genetic research.
    • The database facilitates comprehensive analysis of maize genomic and genetic data.
    • ZmDB supports ongoing maize gene discovery and characterization efforts.