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Related Experiment Videos

SilkPathDB: a comprehensive resource for the study of silkworm pathogens.

Tian Li1, Guo-Qing Pan1, Charles R Vossbrinck2

  • 1State Key Laboratory of Silkworm Genome Biology, Southwest University, Chongqing 400715, China.

Database : the Journal of Biological Databases and Curation
|April 3, 2017
PubMed
Summary

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A new database, SilkPathDB, centralizes genomic data for 86 silkworm pathogens. This resource aids in identifying parasites and understanding silkworm infections and host-parasite ecology.

Area of Science:

  • * Entomology and Microbial Ecology
  • * Genomics and Bioinformatics

Background:

  • * Silkworm pathogens significantly impact sericulture and lepidopteran ecosystems, with some utilized as biological insecticides.
  • * Omics studies on silkworm pathogens generate vast datasets requiring systematic organization for effective reuse.
  • * A centralized repository is crucial for facilitating research on silkworm pathogens and their interactions.

Purpose of the Study:

  • * To develop an open-access database, SilkPathDB, for silkworm pathogen genomic data.
  • * To provide a centralized platform for accessing and analyzing genomic information of silkworm pathogens.
  • * To support research in silkworm disease identification, infection mechanisms, and host-parasite ecological dynamics.

Main Methods:

  • * Collected and integrated genomic data for 86 silkworm pathogens across four taxa (fungi, microsporidia, bacteria, viruses) and four lepidopteran hosts.

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  • * Developed SilkPathDB using Drupal and GBrowse as a graphical interface for a Chado relational database.
  • * Assembled and annotated genomes for comparative analysis, including homologous sequences, transposable elements, and gene ontology.

    • Main Results:

    • * Successfully established SilkPathDB, an open-access resource housing genomic data for 86 silkworm pathogens.
    • * The database enables searching and analyzing various genomic features, including secreted proteins and subcellular locations.
    • * Integrated data facilitates comparative genomics and functional analysis of silkworm pathogens.

    Conclusions:

    • * SilkPathDB provides a valuable, centralized resource for researchers studying silkworm pathogens.
    • * The database will aid in the identification of silkworm parasites and understanding infection mechanisms.
    • * Facilitates research into the developmental ecology and gene expression of silkworm parasites and their hosts.