Microbiology Galaxy Lab: a community-driven gateway for reproducible and FAIR analysis of microbiological data
Abstract
The explosion of microbial omics data has outpaced the ability of many researchers to analyse it, with complex tools and limited computational resources creating barriers to discovery. To address this gap, we present the Microbiology Galaxy Lab (MGL): a free, globally accessible, community-supported platform that combines state-of-the-art analytical power with user-friendly accessibility. Supported by the Galaxy and global microbiology communities, this platform integrates over 315 tool suites and 115 curated workflows, enabling comprehensive metabarcoding, (meta)genomic, (meta)transcriptomic, and (meta)proteomic data analysis within a FAIR-aligned environment. It also supports research in the health and infectious disease sectors, as well as in environmental microbiology. The platform’s utility is exemplified through various use cases, including antimicrobial resistance tracking, biomarker prediction, microbiome classification, and functional annotation of key microbes. Built on reproducibility and community engagement, it supports the creation, sharing, and updating of best-practice workflows. Over 35 tutorials and learning paths empower scientists, fostering an ecosystem that keeps resources at the forefront of microbiological data analysis. The MGL enables collective analysis, democratising research, thereby accelerating discovery across the global microbiology community ( microbiology.usegalaxy.org , .eu , .org.au , . fr ).
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BibTeX
@article{nasr2026microbiology,
title = {{Microbiology Galaxy Lab: a community-driven gateway for reproducible and FAIR analysis of microbiological data}},
author = {Engy M. T. Nasr and Nikolaos Pechlivanis and Nikolaos Strepis and Pierre Amato and Matthias Bernt and Anshu Bhardwaj and Daniel Blankenberg and Daniela Brites and Fabio Cumbo and Katherine T. Do and Emanuele Ferrari and Timothy J. Griffin and Björn A. Grüning and Saskia Hiltemann and Cameron J. Hyde and Pratik D. Jagtap and Ashwani Kumar and Muneer A. Malla and Subina Mehta and Kimberly L. Métris and Saim Momin and Tiffanie Nelson and Asime J. Oba and Christina Pavloudi and Raphaëlle Péguilhan and Gareth R. Price and Fotis Psomopoulos and Nedeljka Rosic and Michael C. Schatz and Valerie Claudia Schiml and Cléa Siguret and Nicola Soranzo and Andrew P. Stubbs and Peter van Heusden and Mustafa Vohra and Paul F. Zierep and Bérénice Batut},
journal = {Communications Biology},
year = {2026},
month = oct,
doi = {10.1038/s42003-026-10750-7},
url = {https://www.nature.com/articles/s42003-026-10750-7},
note = {CC BY 4.0},
}
RIS
TY - JOUR
TI - Microbiology Galaxy Lab: a community-driven gateway for reproducible and FAIR analysis of microbiological data
AU - Engy M. T. Nasr
AU - Nikolaos Pechlivanis
AU - Nikolaos Strepis
AU - Pierre Amato
AU - Matthias Bernt
AU - Anshu Bhardwaj
AU - Daniel Blankenberg
AU - Daniela Brites
AU - Fabio Cumbo
AU - Katherine T. Do
AU - Emanuele Ferrari
AU - Timothy J. Griffin
AU - Björn A. Grüning
AU - Saskia Hiltemann
AU - Cameron J. Hyde
AU - Pratik D. Jagtap
AU - Ashwani Kumar
AU - Muneer A. Malla
AU - Subina Mehta
AU - Kimberly L. Métris
AU - Saim Momin
AU - Tiffanie Nelson
AU - Asime J. Oba
AU - Christina Pavloudi
AU - Raphaëlle Péguilhan
AU - Gareth R. Price
AU - Fotis Psomopoulos
AU - Nedeljka Rosic
AU - Michael C. Schatz
AU - Valerie Claudia Schiml
AU - Cléa Siguret
AU - Nicola Soranzo
AU - Andrew P. Stubbs
AU - Peter van Heusden
AU - Mustafa Vohra
AU - Paul F. Zierep
AU - Bérénice Batut
PY - 2026
DA - 2026/10/29
JO - Communications Biology
DO - 10.1038/s42003-026-10750-7
UR - https://www.nature.com/articles/s42003-026-10750-7
AB - The explosion of microbial omics data has outpaced the ability of many researchers to analyse it, with complex tools and limited computational resources creating barriers to discovery. To address this gap, we present the Microbiology Galaxy Lab (MGL): a free, globally accessible, community-supported platform that combines state-of-the-art analytical power with user-friendly accessibility. Supported by the Galaxy and global microbiology communities, this platform integrates over 315 tool suites and 115 curated workflows, enabling comprehensive metabarcoding, (meta)genomic, (meta)transcriptomic, and (meta)proteomic data analysis within a FAIR-aligned environment. It also supports research in the health and infectious disease sectors, as well as in environmental microbiology. The platform’s utility is exemplified through various use cases, including antimicrobial resistance tracking, biomarker prediction, microbiome classification, and functional annotation of key microbes. Built on reproducibility and community engagement, it supports the creation, sharing, and updating of best-practice workflows. Over 35 tutorials and learning paths empower scientists, fostering an ecosystem that keeps resources at the forefront of microbiological data analysis. The MGL enables collective analysis, democratising research, thereby accelerating discovery across the global microbiology community ( microbiology.usegalaxy.org , .eu , .org.au , . fr ).
SN - 2399-3642
ER -