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FEVER: an interactive web-based resource for evolutionary transcriptomics across fishes.

Jérôme Montfort1, Francisca Hervas-Sotomayor1, Aurélie Le Cam1

  • 1INRAE, LPGP, Rennes, France.

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|April 8, 2024
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Summary

FEVER integrates fish genomes and transcriptomes for evolutionary analysis. This resource enables comparative studies of gene expression across species and tissues, aiding evolutionary and ecological research.

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Area of Science:

  • Comparative genomics
  • Evolutionary biology
  • Bioinformatics

Background:

  • Teleost fish are diverse vertebrate models for ecology and evolution.
  • High-quality fish genomes are available, but transcriptomic data integration is lacking.
  • Existing resources do not comprehensively integrate genomic and transcriptomic data across fish species and organs.

Purpose of the Study:

  • To present FEVER, a web-based resource for evolutionary transcriptomics.
  • To integrate genomic and transcriptomic data for comparative analyses across fish species and tissues.
  • To facilitate the study of gene expression evolution following speciation and duplication events.

Main Methods:

  • Reconstruction of gene trees to identify orthologs and paralogs across 13 fish species and 4 outgroups.
  • Unbiased gene expression quantification across 11 tissues using updated fish genomes.
  • Integration of genomic and transcriptomic data for evolutionary exploration.

Main Results:

  • FEVER provides orthologous and paralogous relationships and their evolutionary dynamics.
  • The resource offers unbiased gene expression data across diverse fish tissues.
  • FEVER enables exploration of gene expression evolution linked to speciation and duplication.

Conclusions:

  • FEVER is a valuable web resource for evolutionary transcriptomics in teleost fish.
  • The integrated data facilitates comparative genomics and the study of gene expression evolution.
  • FEVER supports research in ecology, evolution, and comparative genomics by providing a unified platform.