User profiles for Josué Rodríguez-Ramos

Josué Rodríguez-Ramos

Post-Doctoral Research Scientist, Pacific Northwest National Laboratory
Verified email at pnnl.gov
Cited by 524

DRAM for distilling microbial metabolism to automate the curation of microbiome function

…, P Liu, AB Narrowe, J Rodríguez-Ramos… - Nucleic acids …, 2020 - academic.oup.com
Microbial and viral communities transform the chemistry of Earth's ecosystems, yet the specific
reactions catalyzed by these biological engines are hard to decode due to the absence of …

[HTML][HTML] Towards optimized viral metagenomes for double-stranded and single-stranded DNA viruses from challenging soils

…, N Solonenko, YF Li, B Bolduc, J Rodríguez-Ramos… - PeerJ, 2019 - peerj.com
Soils impact global carbon cycling and their resident microbes are critical to their
biogeochemical processing and ecosystem outputs. Based on studies in marine systems, viruses …

Integrated, coordinated, open, and networked (ICON) science to advance the geosciences: Introduction and synthesis of a special collection of commentary articles

…, LC Pérez‐Angel, JA RodríguezRamos… - Earth and Space …, 2022 - Wiley Online Library
The sciences struggle to integrate across disciplines, coordinate across data generation
and modeling activities, produce connected open data, and build strong networks to engage …

Genome-resolved metaproteomics decodes the microbial and viral contributions to coupled carbon and nitrogen cycling in river sediments

JA Rodríguez-Ramos, MA Borton, BB McGivern… - Msystems, 2022 - Am Soc Microbiol
Rivers have a significant role in global carbon and nitrogen cycles, serving as a nexus for
nutrient transport between terrestrial and marine ecosystems. Although rivers have a small …

Human-gut phages harbor sporulation genes

DA Schwartz, JA Rodríguez-Ramos, M Shaffer… - Mbio, 2023 - Am Soc Microbiol
Spore-forming bacteria are prevalent in mammalian guts and have implications for host health
and nutrition. The production of dormant spores is thought to play an important role in the …

[HTML][HTML] Spatial and temporal metagenomics of river compartments reveals viral community dynamics in an urban impacted stream

J Rodríguez-Ramos, A Oliverio, MA Borton… - Frontiers in …, 2023 - frontiersin.org
Although river ecosystems constitute a small fraction of Earth’s total area, they are critical
modulators of microbially and virally orchestrated global biogeochemical cycles. However, …

Perceived Costs and Benefits of ICON Science and Foundational Documents associated with “Integrated, Coordinated, Open, and Networked (ICON) Science to …

…, SR Emani, LC Pérez-Angel, JA Rodríguez-Ramos… - 2022 - osti.gov
This data package is associated with the publication "Integrated, Coordinated, Open, and
Networked (ICON) Science to Advance the Geosciences: Introduction and Synthesis of a …

[PDF][PDF] Microbial genome-resolved metaproteomic analyses frame intertwined carbon and nitrogen cycles in river hyporheic sediments

JA Rodríguez-Ramos, MA Borton, BB McGivern… - 2021 - scholar.archive.org
Background: Rivers serve as a nexus for nutrient transfer between terrestrial and marine
ecosystems and as such, have a signi cant impact on global carbon and nitrogen cycles. In river …

[HTML][HTML] Exposing new taxonomic variation with inflammation—a murine model-specific genome database for gut microbiome researchers

I Leleiwi, J Rodriguez-Ramos, M Shaffer… - Microbiome, 2023 - Springer
Background The murine CBA/J mouse model widely supports immunology and enteric
pathogen research. This model has illuminated Salmonella interactions with the gut microbiome …

Demystifying Viruses: Understanding the Role of River Viruses on Microbial Community Structure and Biogeochemical Cycling Through a Multi-Omic Lens

JR Ramos - 2023 - search.proquest.com
Viruses are the most abundant entity on the planet, with estimates of up to 10 31 viral particles
dispersed across the globe in every ecosystem that can sustain life. Today, as the world …