Genomics, Technology & Data Standards
Environmental DNA and genomics technologies, from computational biology tools and bioinformatics workflow to digital data and communications strategies, are critical infrastructure of cutting-edge science labs. Our group has diverse experience helping develop the tools and techniques that allow scientists to work.
While not obvious to the untrained, there is a growing need for the creation and implementation of data standards across all disciplines of science that use digital information. Our lab collaborates to help develop FAIR- and CARE-aligned data standards for Genomic Standards Consortium MIxS packages for eDNA and genomics.
Selected Published Works
The MIEM Guidelines: Minimum Information for publication of Environmental Metabarcoding data
Theroux S, ..., Jungbluth MJ, Jungbluth SP, ..., Klymus K. (2024). The MIEM Guidelines: Minimum Information for publication of Environmental Metabarcoding data. Metabarcoding and Metagenomics. 8, e128689. https://doi.org/10.3897/mbmg.8.128689
A metadata checklist and data formatting guidelines to make eDNA FAIR (Findable, Accessible, Interoperable and Reusable)
Takahashi M, ..., Jungbluth SP, et al. (2025). A metadata checklist and data formatting guidelines to make eDNA FAIR (Findable, Accessible, Interoperable and Reusable). Accepted to eDNA.
Bowers RM, ..., Jungbluth SP, ..., Woyke T. (2017). Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology, 35(8), 725–731. https://doi.org/10.1038/nbt.3893
Chivian D, Jungbluth SP, ..., Arkin AP. (2023). Metagenome-assembled genome extraction and analysis from microbiomes using KBase. Nature Protocols, 18(1), 208–238. https://doi.org/10.1038/s41596-022-00747-x
Marlow J, ..., Jungbluth SP, et al. (2017). Telepresence is a potentially transformative tool for field science. Proceedings of the National Academy of Sciences, 114(19), 4841–4844. https://doi.org/10.1073/pnas.1703514114
Chen, I-MA, ..., Jungbluth SP, ..., Kyrpides NC. (2019). IMG/M v.5.0: an integrated data management and comparative analysis system for microbial genomes and microbiomes. Nucleic Acids Research, 47(D1), D666–D677. https://doi.org/10.1093/nar/gky901