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SPDB: a specialized database and web-based analysis platform for swine pathogens.

Xiaoru Wang1, Zongbao Liu2, Xiaoying Li1

  • 1School of Food Science and Engineering, South China University of Technology, 381 Wushan Road, Tianhe District, Guangzhou, Guangdong Province 510641, China.

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|August 8, 2020
PubMed
Summary
This summary is machine-generated.

A new Swine Pathogen Database (SPDB) aids in diagnosing swine diseases using next-generation sequencing (NGS). This specialized platform supports veterinarians and researchers with bioinformatics tools for pathogen identification in clinical samples.

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Area of Science:

  • Veterinary microbiology
  • Bioinformatics
  • Genomics

Background:

  • Accurate diagnosis of swine diseases is crucial for the pork industry.
  • Next-generation sequencing (NGS) offers a promising approach for swine disease diagnostics.

Purpose of the Study:

  • To establish a comprehensive database and analysis platform for swine pathogens.
  • To support the application of NGS in swine disease diagnosis and research.

Main Methods:

  • Development of the Swine Pathogen Database (SPDB).
  • Inclusion of 26,148 genomes of swine, pathogens, and related species.
  • Implementation of a bioinformatics pipeline for pathogen identification using 16S rRNA and metagenomic NGS data.

Main Results:

  • SPDB is the first specialized database and analysis platform for swine pathogens.
  • The database contains 26,148 genomes and supports identification of 4403 swine pathogens.
  • Provides a user-friendly interface for veterinarians and researchers.

Conclusions:

  • SPDB is a valuable resource for swine disease diagnosis using NGS.
  • Facilitates pathogen identification in clinical samples.
  • Enhances the application of NGS in veterinary research and practice.