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The Floating Lab: Standard Operational Procedure for Collecting and Filtering Seawater Samples from Operating Ferries for Environmental DNA Analysis
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eDNAmap: A Metabarcoding Web Tool for Comparing Marine Biodiversity, With Special Reference to Teleost Fish.

Jun Inoue1, Junya Hirai1, Kiriko Ikeba1

  • 1Atmosphere and Ocean Research Institute, The University of Tokyo, Kashiwa, Japan.

Molecular Ecology Resources
|November 5, 2025
PubMed
Summary
This summary is machine-generated.

A new web platform, eDNAmap, helps analyze and store marine environmental DNA (eDNA) metabarcoding data. This tool aids in mapping species distributions and comparing marine biodiversity across regions.

Keywords:
biogeographic boundarycommunity comparisonsenvironmental DNAmapteleost fish

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Area of Science:

  • Marine ecology
  • Bioinformatics
  • Genomics

Background:

  • Marine environmental DNA (eDNA) metabarcoding data are increasingly available, offering insights into species distribution and community composition.
  • Existing data lack a centralized platform for effective utilization, analysis, and accumulation, hindering comprehensive marine biodiversity assessments.
  • Remote and understudied marine environments generate valuable eDNA data that require specialized tools for interpretation.

Purpose of the Study:

  • To develop eDNAmap, a web-based platform for analyzing and storing marine eDNA metabarcoding data.
  • To provide tools for visualizing sampling locations, identifying batch effects, and performing community analyses.
  • To facilitate species distribution mapping and comparative biodiversity assessments in marine ecosystems.

Main Methods:

  • Development of a web-based platform (eDNAmap) integrating data analysis and storage functionalities.
  • Implementation of automated features for plotting sampling sites, generating heatmaps for batch effect evaluation, and performing nonmetric multidimensional scaling (NMDS) and cluster analyses.
  • Inclusion of a database of teleost fish from the Northwestern Pacific, with flexibility for incorporating data from other marine taxa.

Main Results:

  • eDNAmap enables users to upload and analyze marine eDNA metabarcoding data, including species or sequence composition with location information.
  • The platform visualizes sampling locations, detects potential batch effects, and performs community structure analyses using similarity indices.
  • Case study successfully verified the existence of the Watase line using fish eDNA data, demonstrating the platform's utility.

Conclusions:

  • eDNAmap provides a crucial resource for the effective analysis and management of marine eDNA metabarcoding data.
  • The platform supports the identification of species distributions and comparative biodiversity studies, enhancing ecological interpretations.
  • eDNAmap's flexible design accommodates various marine organisms, promoting cross-taxa biogeographic pattern detection and the identification of environmental drivers.