Metagenome-Assembled Genomes Generated in a Shotgun Sequencing Benchmark Study

Zenodo (CERN European Organization for Nuclear Research)

Abstract

This dataset includes the metagenome-assembled genomes created for benchmarking of strain-level analysis at different shotgun sequencing depths. Complex mixtures of DNA from up to 70 cultured bacteria in different distributions were sequenced at up to 11 sequencing depths (0.1–50.0 Gb). For assembly of the contigs from short reads either MEGAHIT or metaSPAdes were used. The study includes short and long reads, as well a two different binning approaches. Detailed information of the methods and description of the Mock communities can be found in the publication "Benchmarking of shotgun sequencing depth reveals the potential and limitations of shallow metagenomics and strain-level analysis" https://doi.org/10.1038/s41564-026-02334-2

Authors 8

1. Nicole Simone Treichel Aachen

   Universitätsklinikum Aachen · RWTH Aachen University

   Affiliation as printed

   University Hospital of RWTH Aachen

2. Charlie Pauvert Aachen

   Universitätsklinikum Aachen · RWTH Aachen University

   Affiliation as printed

   University Hospital of RWTH Aachen

3. Joana Séneca

   University of Vienna

   Affiliation as printed

   University of Vienna

4. Petra Pjevac

   University of Vienna

   Affiliation as printed

   University of Vienna

5. David Berry

   University of Vienna

   Affiliation as printed

   University of Vienna

6. John Penders

   Maastricht University

   Affiliation as printed

   Maastricht University

7. Thomas C. A. Hitch Aachen

   Universitätsklinikum Aachen · RWTH Aachen University

   Affiliation as printed

   University Hospital of RWTH Aachen

8. Thomas Clavel Aachen

   Universitätsklinikum Aachen · RWTH Aachen University

   Affiliation as printed

   University Hospital of RWTH Aachen