Research in the Eloe-Fadrosh group focuses on using genome-resolved metagenomic approaches to identify and characterize genomic information from uncultivated microbes and viruses. We develop computational approaches to sift through thousands of metagenomes for signatures of viruses and novel microbial lineages, and reconstruct metabolic properties encoded within those genomes. Our aim is to more fully capture microbial and viral diversity, leading to a better understanding of microbial communities and ecosystem function. The Environmental Genomics group also hosts the Viral Genomics group.
|Emiley Eloe-Fadrosh, PI||Matthew Kellom, Microbiome Research Scientist||Robin Rohwer, Postdoctoral Fellow||Neha Varghese,
Staff Data Scientist
|More about Emiley.||Matt is broadly interested in the interactions between microbial life and environment, and using metagenomics to study these complex natural systems. Microbial communities living in hard-to-reach places that are considered to be inhospitable to humans are of particular interest. Matt also supports various CSP and FICUS user projects for the Metagenome Program.||Robin studies microbial ecology and evolution in a 20-year, 500-metagenome time series from Lake Mendota (WI, USA). By exploring ecological and evolutionary signals across a spectrum of phylogenetic resolutions, she is searching for unifying principles that describe changes in microbial communities over time.||Neha’s key role is to design, benchmark, and apply bioinformatics software to enable analysis and interpretation of genomic and metagenomic data for JGI’s user community. She also provides support for user science and projects through implementation of advanced analysis pipelines and tools as well as development and implementation of microservices in conjunction with the IMG platform.||Dariia’s research centers on developing a scalable framework for the analysis of DNA stable isotope probing metagenomics data, allowing culture-independent identification of microbial populations performing specific metabolic functions. Her second project is focused on how microbial metabolic pathways can be used to characterize and compare diverse microbial communities.|
- Nayfach S et al. A Genomic Catalog of Earth’s Microbiomes. Nature Biotechnology. 2020 Nov 9. doi: 10.1038/s41587-020-0718-6.
- Ladau, J. et al. (2019) Spatial, Temporal, and Phylogenetic Scales of Microbial Ecology. Trends Microbiol. 10.1016/j.tim.2019.03.003
- Malmstrom, R. R. et al. (2019) Advancing Genome-Resolved Metagenomics beyond the Shotgun. mSystems 4(3). 10.1128/mSystems.00118-19
- Eloe-Fadrosh, Emiley A. et al. (2016) Metagenomics uncovers gaps in amplicon-based detection of microbial diversity. Nature Microbiology , 15032. 10.1038/nmicrobiol.2015.32
- Eloe-Fadrosh, E. A. et al. (2016) Global metagenomic survey reveals a new bacterial candidate phylum in geothermal springs. Nat Commun 7, 10476. 10.1038/ncomms10476