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Related Concept Videos

Gene Flow02:39

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Gene flow is the transfer of genes among populations, resulting from either the dispersal of gametes or from the migration of individuals.
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Author Spotlight: Advanced Enteroid Model for Studying Host-Pathogen Interactions
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PHI-base - the multi-species pathogen-host interaction database in 2025.

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  • 1Protecting Crops and the Environment, Rothamsted Research, Harpenden AL5 2JQ, UK.

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Summary
This summary is machine-generated.

The Pathogen-Host Interactions Database (PHI-base) has updated its curated gene and interaction data, enhancing its utility for studying pathogen virulence. New versions offer expanded content and improved data sharing capabilities for researchers.

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Area of Science:

  • Microbiology
  • Genomics
  • Bioinformatics

Background:

  • The Pathogen-Host Interactions Database (PHI-base) has served as a crucial resource since 2005.
  • It manually curates experimentally verified genes involved in pathogenicity, virulence, and effector functions.
  • PHI-base covers interactions between diverse pathogens (fungal, bacterial, protist) and various hosts (human, animal, plant, invertebrate, fungal).

Purpose of the Study:

  • To report major updates and improvements to the PHI-base resource.
  • To introduce the latest versions (4.17 and 5.0) and their enhanced features.
  • To highlight the growing impact and diverse applications of PHI-base in research.

Main Methods:

  • Manual curation of pathogen genes and host interactions.
  • Data integration and unification from new curation workflows (PHI-Canto).
  • Implementation of data standards like Frictionless Data framework.
  • Interfacing with other databases such as Ensembl for data sharing.

Main Results:

  • PHI-base version 4.17 shows a 19% increase in genes and a 23% increase in interactions compared to version 4.12.
  • PHI-base version 5.0 represents the first complete release integrating data from the PHI-Canto curation workflow.
  • Support for Frictionless Data framework and enhanced data sharing with Ensembl have been added.
  • Analysis of conserved orthologous genes within PHI-base has been performed.

Conclusions:

  • PHI-base continues to be a vital, expanding resource for understanding pathogen-host interactions.
  • The latest updates enhance data accessibility, integration, and research utility.
  • PHI-base 4.17 and 5.0 are freely available, supporting a wide range of scientific studies.