The Earth Hologenome Initiative: Data Release 1

Nanna Gaun; Carlotta Pietroni; Garazi Martin-Bideguren; Jonas Lauritsen; Ostaizka Aizpurua; Joana M Fernandes; Eduardo Ferreira; Fabien Aubret; Tom Sarraude; Constant Perry; Lucas Wauters; Claudia Romeo; Martina Spada; Claudia Tranquillo; Alex O Sutton; Michael Griesser; Miyako H Warrington; Guillem Pérez I de Lanuza; Javier Abalos; Prem Aguilar; Ferran de la Cruz; Javier Juste; Pedro Alonso-Alonso; Jim Groombridge; Rebecca Louch; Kevin Ruhomaun; Sion Henshaw; Carlos Cabido; Ion Garin Barrio; Emina Šunje; Peter Hosner; Ivan Prates; Geoffrey M While; Roberto García-Roa; Tobias Uller; Nathalie Feiner; Elisa Bonaccorso; Pernille Klein-Ipsen; Rosalina Molberg Rotovnik; Antton Alberdi; Raphael Eisenhofer

doi:10.1093/gigascience/giaf102

The Earth Hologenome Initiative: Data Release 1

Nanna Gaun
, Carlotta Pietroni
, Garazi Martin-Bideguren
, Jonas Lauritsen
, Ostaizka Aizpurua
, Joana M Fernandes
, Eduardo Ferreira
, Fabien Aubret
, Tom Sarraude
, Constant Perry
, Lucas Wauters
, Claudia Romeo
, Martina Spada
, Claudia Tranquillo
, Alex O Sutton
, Michael Griesser
, Miyako H Warrington
, Guillem Pérez I de Lanuza
, Javier Abalos
, Prem Aguilar

Ferran de la Cruz, Javier Juste, Pedro Alonso-Alonso, Jim Groombridge, Rebecca Louch, Kevin Ruhomaun, Sion Henshaw, Carlos Cabido, Ion Garin Barrio, Emina Šunje, Peter Hosner, Ivan Prates, Geoffrey M While, Roberto García-Roa, Tobias Uller, Nathalie Feiner, Elisa Bonaccorso, Pernille Klein-Ipsen, Rosalina Molberg Rotovnik, Antton Alberdi, Raphael Eisenhofer

School of Environmental & Natural Sciences

University of Copenhagen
University of Aveiro
Station d'Ecologie Théorique et Expérimentale
Università degli Studi dell'Insubria
University of Konstanz
Luondua Boreal Research Station
University of Valencia
Universidade do Porto
Estación Biológica de Doñana, CSIC
University of Würzburg
University of Kent
National Parks and Conservation Service
Mauritian Wildlife Foundation
Aranzadi Science Foundation
University of Sarajevo
Lund University
University of Tasmania
Instituto Biósfera

Research output: Contribution to journal › Article › peer-review

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Abstract

BackgroundThe Earth Hologenome Initiative (EHI) is a global endeavor dedicated to revisit fundamental ecological and evolutionary questions from the systemic host-microbiota perspective, through the standardized generation and analysis of joint animal genomic and associated microbial metagenomic data.ResultsThe first data release of the EHI contains 968 shotgun DNA sequencing read files containing 5.2 TB of raw genomic and metagenomic data derived from 21 vertebrate species sampled across 12 countries, as well as 17,666 metagenome-assembled genomes reconstructed from these data.ConclusionsThe dataset can be used to address fundamental questions about host-microbiota interactions and will be available to the research community under the EHI data usage conditions.

Original language	English
Article number	giaf102
Journal	GigaScience
Volume	14
DOIs	https://doi.org/10.1093/gigascience/giaf102
Publication status	Published - 5 Sept 2025

Keywords

Genome
Bacteria
Microbiota
Metagenomics
Microbiome
Mag
Genome-resolved Metagenomics
Metagenome-assembled Genome
Animals
Vertebrates
Databases, Genetic
Metagenome
Earth, Planet
Metagenomics/methods
Microbiota/genetics
Vertebrates/genetics

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10.1093/gigascience/giaf102Licence: CC BY

giaf102Final published version, 1.99 MBLicence: CC BY

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Gaun, N., Pietroni, C., Martin-Bideguren, G., Lauritsen, J., Aizpurua, O., Fernandes, J. M., Ferreira, E., Aubret, F., Sarraude, T., Perry, C., Wauters, L., Romeo, C., Spada, M., Tranquillo, C., Sutton, A. O., Griesser, M., Warrington, M. H., Pérez I de Lanuza, G., Abalos, J., ... Eisenhofer, R. (2025). The Earth Hologenome Initiative: Data Release 1. GigaScience, 14, Article giaf102. https://doi.org/10.1093/gigascience/giaf102

@article{16f356e231ce497a8255049172c81612,

title = "The Earth Hologenome Initiative: Data Release 1",

abstract = "BackgroundThe Earth Hologenome Initiative (EHI) is a global endeavor dedicated to revisit fundamental ecological and evolutionary questions from the systemic host-microbiota perspective, through the standardized generation and analysis of joint animal genomic and associated microbial metagenomic data.ResultsThe first data release of the EHI contains 968 shotgun DNA sequencing read files containing 5.2 TB of raw genomic and metagenomic data derived from 21 vertebrate species sampled across 12 countries, as well as 17,666 metagenome-assembled genomes reconstructed from these data.ConclusionsThe dataset can be used to address fundamental questions about host-microbiota interactions and will be available to the research community under the EHI data usage conditions.",

keywords = "Genome, Bacteria, Microbiota, Metagenomics, Microbiome, Mag, Genome-resolved Metagenomics, Metagenome-assembled Genome, Animals, Vertebrates, Databases, Genetic, Metagenome, Earth, Planet, Metagenomics/methods, Microbiota/genetics, Vertebrates/genetics",

author = "Nanna Gaun and Carlotta Pietroni and Garazi Martin-Bideguren and Jonas Lauritsen and Ostaizka Aizpurua and Fernandes, \{Joana M\} and Eduardo Ferreira and Fabien Aubret and Tom Sarraude and Constant Perry and Lucas Wauters and Claudia Romeo and Martina Spada and Claudia Tranquillo and Sutton, \{Alex O\} and Michael Griesser and Warrington, \{Miyako H\} and \{P{\'e}rez I de Lanuza\}, Guillem and Javier Abalos and Prem Aguilar and \{de la Cruz\}, Ferran and Javier Juste and Pedro Alonso-Alonso and Jim Groombridge and Rebecca Louch and Kevin Ruhomaun and Sion Henshaw and Carlos Cabido and Barrio, \{Ion Garin\} and Emina {\v S}unje and Peter Hosner and Ivan Prates and While, \{Geoffrey M\} and Roberto Garc{\'i}a-Roa and Tobias Uller and Nathalie Feiner and Elisa Bonaccorso and Pernille Klein-Ipsen and Rotovnik, \{Rosalina Molberg\} and Antton Alberdi and Raphael Eisenhofer",

note = "{\textcopyright} The Author(s) 2025. Published by Oxford University Press on behalf of GigaScience.",

year = "2025",

month = sep,

day = "5",

doi = "10.1093/gigascience/giaf102",

language = "English",

volume = "14",

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Gaun, N, Pietroni, C, Martin-Bideguren, G, Lauritsen, J, Aizpurua, O, Fernandes, JM, Ferreira, E, Aubret, F, Sarraude, T, Perry, C, Wauters, L, Romeo, C, Spada, M, Tranquillo, C, Sutton, AO, Griesser, M, Warrington, MH, Pérez I de Lanuza, G, Abalos, J, Aguilar, P, de la Cruz, F, Juste, J, Alonso-Alonso, P, Groombridge, J, Louch, R, Ruhomaun, K, Henshaw, S, Cabido, C, Barrio, IG, Šunje, E, Hosner, P, Prates, I, While, GM, García-Roa, R, Uller, T, Feiner, N, Bonaccorso, E, Klein-Ipsen, P, Rotovnik, RM, Alberdi, A & Eisenhofer, R 2025, 'The Earth Hologenome Initiative: Data Release 1', GigaScience, vol. 14, giaf102. https://doi.org/10.1093/gigascience/giaf102

TY - JOUR

T1 - The Earth Hologenome Initiative: Data Release 1

AU - Gaun, Nanna

AU - Pietroni, Carlotta

AU - Martin-Bideguren, Garazi

AU - Lauritsen, Jonas

AU - Aizpurua, Ostaizka

AU - Fernandes, Joana M

AU - Ferreira, Eduardo

AU - Aubret, Fabien

AU - Sarraude, Tom

AU - Perry, Constant

AU - Wauters, Lucas

AU - Romeo, Claudia

AU - Spada, Martina

AU - Tranquillo, Claudia

AU - Sutton, Alex O

AU - Griesser, Michael

AU - Warrington, Miyako H

AU - Pérez I de Lanuza, Guillem

AU - Abalos, Javier

AU - Aguilar, Prem

AU - de la Cruz, Ferran

AU - Juste, Javier

AU - Alonso-Alonso, Pedro

AU - Groombridge, Jim

AU - Louch, Rebecca

AU - Ruhomaun, Kevin

AU - Henshaw, Sion

AU - Cabido, Carlos

AU - Barrio, Ion Garin

AU - Šunje, Emina

AU - Hosner, Peter

AU - Prates, Ivan

AU - While, Geoffrey M

AU - García-Roa, Roberto

AU - Uller, Tobias

AU - Feiner, Nathalie

AU - Bonaccorso, Elisa

AU - Klein-Ipsen, Pernille

AU - Rotovnik, Rosalina Molberg

AU - Alberdi, Antton

AU - Eisenhofer, Raphael

PY - 2025/9/5

Y1 - 2025/9/5

N2 - BackgroundThe Earth Hologenome Initiative (EHI) is a global endeavor dedicated to revisit fundamental ecological and evolutionary questions from the systemic host-microbiota perspective, through the standardized generation and analysis of joint animal genomic and associated microbial metagenomic data.ResultsThe first data release of the EHI contains 968 shotgun DNA sequencing read files containing 5.2 TB of raw genomic and metagenomic data derived from 21 vertebrate species sampled across 12 countries, as well as 17,666 metagenome-assembled genomes reconstructed from these data.ConclusionsThe dataset can be used to address fundamental questions about host-microbiota interactions and will be available to the research community under the EHI data usage conditions.

AB - BackgroundThe Earth Hologenome Initiative (EHI) is a global endeavor dedicated to revisit fundamental ecological and evolutionary questions from the systemic host-microbiota perspective, through the standardized generation and analysis of joint animal genomic and associated microbial metagenomic data.ResultsThe first data release of the EHI contains 968 shotgun DNA sequencing read files containing 5.2 TB of raw genomic and metagenomic data derived from 21 vertebrate species sampled across 12 countries, as well as 17,666 metagenome-assembled genomes reconstructed from these data.ConclusionsThe dataset can be used to address fundamental questions about host-microbiota interactions and will be available to the research community under the EHI data usage conditions.

KW - Genome

KW - Bacteria

KW - Microbiota

KW - Metagenomics

KW - Microbiome

KW - Mag

KW - Genome-resolved Metagenomics

KW - Metagenome-assembled Genome

KW - Animals

KW - Vertebrates

KW - Databases, Genetic

KW - Metagenome

KW - Earth, Planet

KW - Metagenomics/methods

KW - Microbiota/genetics

KW - Vertebrates/genetics

U2 - 10.1093/gigascience/giaf102

DO - 10.1093/gigascience/giaf102

M3 - Article

C2 - 40910796

SN - 2047-217X

VL - 14

JO - GigaScience

JF - GigaScience

M1 - giaf102

ER -

The Earth Hologenome Initiative: Data Release 1

Abstract

Keywords

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